ID:

dan_39

 Coordinate:

scaffold_13417:2478497-2478562 -

 Confidence:

Known Ortholog

 Class:

Testes-restricted

 Genomic Locale:

5pUTR

 [View on UCSC Genome Browser {Cornell Mirror}]
Legend: mature star mismatch in alignment mismatch in read

Predicted structure

-35.6

Flybase annnotation

utr5 [utr5_plus_15687]

No Repeatable elements found

Sense Strand Reads

CCGAATCCAATCGCGGTTGCAATCCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTGCTTTTAATGGTCAAATATAACTTTTTTGGAAGCTACGAGGAGTTGTCCTCAGCGCTTATGAAATCGAATGATCCCTTCTCCTCAGCCT

***********************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...************************************ 		Read size # Mismatch Hit Count Total Norm Total V105

male body		 V106

head

 V055

head

 M044

female body

 M058

embryo

 V039

embryo
..................................................AAGCGAGCAAAGAAGTAGTATT.............................................................................................. 22 0 1 355.00 355 294 37 19 4 1 0
..................................................AAGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 0 1 114.00 114 91 17 5 1 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACG................................................... 22 0 1 80.00 80 74 0 5 1 0 0
..................................................AAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 0 1 54.00 54 51 1 2 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 1 1 11.00 11 7 4 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATTT............................................................................................. 22 0 1 9.00 9 5 4 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGT.................................................. 23 1 1 8.00 8 7 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAAT.............................................................................................. 22 1 1 4.00 4 4 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATT.............................................................................................. 21 0 1 4.00 4 4 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGTT............................................................................................. 23 1 1 3.00 3 3 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTA................................................................................................ 20 0 1 3.00 3 2 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTGGTATT.............................................................................................. 22 1 1 3.00 3 0 2 1 0 0 0
..................................................AAGCGAGCAAAGAAGCAGTATT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 3.00 3 0 3 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTAC.................................................... 22 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTATT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTAC.................................................... 21 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 1 1 2.00 2 1 1 0 0 0 0
..................................................AAGCGAGCAAAGAAGGAGTATT.............................................................................................. 22 1 1 2.00 2 1 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
....................................................GCGAGCAAAGACGTAGTATTT............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTGTTT............................................................................................. 22 1 1 1.00 1 0 0 1 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTATG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGCAGTAGTATTT............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGCAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTC............................................................................................ 24 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAACAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTACTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGTAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTATTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGATGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTTGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 2 1 1.00 1 1 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTA..................................................... 21 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTC............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTAGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
..................................................AGGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGGGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 0 1 0 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTCTTGGAAGCTACG................................................... 22 1 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAACAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGA.................................................. 23 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTTT............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAATTTTTTTGGAAGCTACGT.................................................. 23 2 1 1.00 1 0 0 0 1 0 0
.............................................................................................TATAACTTTTTTGGAATCTAAGT.................................................. 23 3 2 1.00 2 0 0 2 0 0 0
..................................................GAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.................................................CAAGCGAGCAAAGAAGTAGTATT.............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGATCAAAGAAGTAGTATT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCGAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................ACGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTT................................................................................................ 20 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
...........................................................................................AATATAACTTTTTTGGAATCT...................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTAA............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAG............................................................................................... 21 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGACGTATTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTATGGAATCTACG................................................... 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAACGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGAAAAGAGGTAGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTAGT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTTGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAAAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGTAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTGTT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTA..................................................... 20 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.......................................................................................................TTGGAAGGTAGGAAGAGTTGT.......................................... 21 3 1 1.00 1 0 0 1 0 0 0
....................................................GCGAGCAAAGAAGTAGTATTG............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGAGAGAAAAGAAGTAGTATTT............................................................................................. 23 2 2 0.50 1 1 0 0 0 0 0
..................................................AAGAGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 2 0.50 1 1 0 0 0 0 0
..................................................AAGCGCGCACAGCAGTAGTAT............................................................................................... 21 3 3 0.33 1 0 0 1 0 0 0
..................................................AAGCGAGCGCAGAAGAAGTATTT............................................................................................. 23 3 3 0.33 1 0 0 1 0 0 0
.............................................................................................TATAACGTTTTTTGAAGATACG................................................... 22 3 3 0.33 1 0 0 1 0 0 0
................................................CTAAGTGGGCAAGGAAGTA................................................................................................... 19 3 20 0.10 2 0 0 2 0 0 0
................................................CTAAGCGGGCCAGGAAGTAG.................................................................................................. 20 3 12 0.08 1 0 0 1 0 0 0
................................................CTAAGCGGGGAACGAAGTA................................................................................................... 19 3 14 0.07 1 0 0 1 0 0 0
...........................................................................................GATATCACTTTTGTGGAAGC....................................................... 20 3 19 0.05 1 0 0 0 0 0 1
................................................CTAAGTGAGGAAGGAAGTA................................................................................................... 19 3 20 0.05 1 0 0 1 0 0 0

Anti-sense strand reads

GGCTTAGGTTAGCGCCAACGTTAGGACCGAACCCCATCCAGTAGAGGAGATTCGCTCGTTTCTTCATCATAAACAAACGAAAATTACCAGTTTATATTGAAAAAACCTTCGATGCTCCTCAACAGGAGTCGCGAATACTTTAGCTTACTAGGGAAGAGGAGTCGGA

************************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total V055

head

 M058

embryo
......................................................................................................................................GTACTGAAGCTTACTAGGGA............ 20 3 4 0.25 1 1 0
.....AGGGTAGCTCCAGCGTTAG.............................................................................................................................................. 19 3 16 0.13 2 0 2
...............................................................TCATCATAAAGAAACGGCAA................................................................................... 20 3 20 0.05 1 1 0
..............................................CAGATTGGCTCGTTTCTA...................................................................................................... 18 3 20 0.05 1 0 1

-35.6

Flybase annnotation

utr5 [utr5_plus_15687]

No Repeatable elements found

Sense Strand Reads

CCGAATCCAATCGCGGTTGCAATCCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTGCTTTTAATGGTCAAATATAACTTTTTTGGAAGCTACGAGGAGTTGTCCTCAGCGCTTATGAAATCGAATGATCCCTTCTCCTCAGCCT

***********************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...************************************ 		Read size # Mismatch Hit Count Total Norm Total V105

male body		 V106

head

 V055

head

 M044

female body

 M058

embryo

 V039

embryo
..................................................AAGCGAGCAAAGAAGTAGTATT.............................................................................................. 22 0 1 355.00 355 294 37 19 4 1 0
..................................................AAGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 0 1 114.00 114 91 17 5 1 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACG................................................... 22 0 1 80.00 80 74 0 5 1 0 0
..................................................AAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 0 1 54.00 54 51 1 2 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 1 1 11.00 11 7 4 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATTT............................................................................................. 22 0 1 9.00 9 5 4 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGT.................................................. 23 1 1 8.00 8 7 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAAT.............................................................................................. 22 1 1 4.00 4 4 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATT.............................................................................................. 21 0 1 4.00 4 4 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGTT............................................................................................. 23 1 1 3.00 3 3 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTA................................................................................................ 20 0 1 3.00 3 2 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTGGTATT.............................................................................................. 22 1 1 3.00 3 0 2 1 0 0 0
..................................................AAGCGAGCAAAGAAGCAGTATT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 3.00 3 0 3 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTAC.................................................... 22 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTATT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTAC.................................................... 21 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 1 1 2.00 2 1 1 0 0 0 0
..................................................AAGCGAGCAAAGAAGGAGTATT.............................................................................................. 22 1 1 2.00 2 1 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
....................................................GCGAGCAAAGACGTAGTATTT............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTGTTT............................................................................................. 22 1 1 1.00 1 0 0 1 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTATG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGCAGTAGTATTT............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGCAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTC............................................................................................ 24 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAACAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTACTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGTAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTATTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGATGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTTGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 2 1 1.00 1 1 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTA..................................................... 21 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTC............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTAGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
..................................................AGGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGGGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 0 1 0 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTCTTGGAAGCTACG................................................... 22 1 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAACAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGA.................................................. 23 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTTT............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAATTTTTTTGGAAGCTACGT.................................................. 23 2 1 1.00 1 0 0 0 1 0 0
.............................................................................................TATAACTTTTTTGGAATCTAAGT.................................................. 23 3 2 1.00 2 0 0 2 0 0 0
..................................................GAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.................................................CAAGCGAGCAAAGAAGTAGTATT.............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGATCAAAGAAGTAGTATT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCGAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................ACGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTT................................................................................................ 20 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
...........................................................................................AATATAACTTTTTTGGAATCT...................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTAA............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAG............................................................................................... 21 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGACGTATTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTATGGAATCTACG................................................... 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAACGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGAAAAGAGGTAGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTAGT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTTGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAAAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGTAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTGTT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTA..................................................... 20 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.......................................................................................................TTGGAAGGTAGGAAGAGTTGT.......................................... 21 3 1 1.00 1 0 0 1 0 0 0
....................................................GCGAGCAAAGAAGTAGTATTG............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGAGAGAAAAGAAGTAGTATTT............................................................................................. 23 2 2 0.50 1 1 0 0 0 0 0
..................................................AAGAGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 2 0.50 1 1 0 0 0 0 0
..................................................AAGCGCGCACAGCAGTAGTAT............................................................................................... 21 3 3 0.33 1 0 0 1 0 0 0
..................................................AAGCGAGCGCAGAAGAAGTATTT............................................................................................. 23 3 3 0.33 1 0 0 1 0 0 0
.............................................................................................TATAACGTTTTTTGAAGATACG................................................... 22 3 3 0.33 1 0 0 1 0 0 0
................................................CTAAGTGGGCAAGGAAGTA................................................................................................... 19 3 20 0.10 2 0 0 2 0 0 0
................................................CTAAGCGGGCCAGGAAGTAG.................................................................................................. 20 3 12 0.08 1 0 0 1 0 0 0
................................................CTAAGCGGGGAACGAAGTA................................................................................................... 19 3 14 0.07 1 0 0 1 0 0 0
...........................................................................................GATATCACTTTTGTGGAAGC....................................................... 20 3 19 0.05 1 0 0 0 0 0 1
................................................CTAAGTGAGGAAGGAAGTA................................................................................................... 19 3 20 0.05 1 0 0 1 0 0 0

Anti-sense strand reads

GGCTTAGGTTAGCGCCAACGTTAGGACCGAACCCCATCCAGTAGAGGAGATTCGCTCGTTTCTTCATCATAAACAAACGAAAATTACCAGTTTATATTGAAAAAACCTTCGATGCTCCTCAACAGGAGTCGCGAATACTTTAGCTTACTAGGGAAGAGGAGTCGGA

************************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total V055

head

 M058

embryo
......................................................................................................................................GTACTGAAGCTTACTAGGGA............ 20 3 4 0.25 1 1 0
.....AGGGTAGCTCCAGCGTTAG.............................................................................................................................................. 19 3 16 0.13 2 0 2
...............................................................TCATCATAAAGAAACGGCAA................................................................................... 20 3 20 0.05 1 1 0
..............................................CAGATTGGCTCGTTTCTA...................................................................................................... 18 3 20 0.05 1 0 1

-35.6

Flybase annnotation

utr5 [utr5_plus_15687]

No Repeatable elements found

Sense Strand Reads

CCGAATCCAATCGCGGTTGCAATCCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTGCTTTTAATGGTCAAATATAACTTTTTTGGAAGCTACGAGGAGTTGTCCTCAGCGCTTATGAAATCGAATGATCCCTTCTCCTCAGCCT

***********************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...************************************ 		Read size # Mismatch Hit Count Total Norm Total V105

male body		 V106

head

 V055

head

 M044

female body

 M058

embryo

 V039

embryo
..................................................AAGCGAGCAAAGAAGTAGTATT.............................................................................................. 22 0 1 355.00 355 294 37 19 4 1 0
..................................................AAGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 0 1 114.00 114 91 17 5 1 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACG................................................... 22 0 1 80.00 80 74 0 5 1 0 0
..................................................AAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 0 1 54.00 54 51 1 2 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 1 1 11.00 11 7 4 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATTT............................................................................................. 22 0 1 9.00 9 5 4 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGT.................................................. 23 1 1 8.00 8 7 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAAT.............................................................................................. 22 1 1 4.00 4 4 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTATT.............................................................................................. 21 0 1 4.00 4 4 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGTT............................................................................................. 23 1 1 3.00 3 3 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTA................................................................................................ 20 0 1 3.00 3 2 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTGGTATT.............................................................................................. 22 1 1 3.00 3 0 2 1 0 0 0
..................................................AAGCGAGCAAAGAAGCAGTATT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 3.00 3 0 3 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAGT.............................................................................................. 22 1 1 3.00 3 3 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTAC.................................................... 22 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTATT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTAC.................................................... 21 0 1 2.00 2 2 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 1 1 2.00 2 1 1 0 0 0 0
..................................................AAGCGAGCAAAGAAGGAGTATT.............................................................................................. 22 1 1 2.00 2 1 0 1 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACT.............................................................................................. 22 1 1 2.00 2 2 0 0 0 0 0
....................................................GCGAGCAAAGACGTAGTATTT............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGAAGTAGTGTTT............................................................................................. 22 1 1 1.00 1 0 0 1 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTATG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
...................................................AGCGAGCAAAGCAGTAGTATTT............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGCAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTTC............................................................................................ 24 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAACAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTACTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGTAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTATTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGATGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTTGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTTT........................................................................................... 25 2 1 1.00 1 1 0 0 0 0 0
............................................................................................ATATAACTTTTTTGGAAGCTA..................................................... 21 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTATTC............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTAGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTACTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
..................................................AGGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGGGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 0 1 0 0 0 0
..................................................AGGCGAGCAAAGAAGTAGTATTTT............................................................................................ 24 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTCTTGGAAGCTACG................................................... 22 1 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAACAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTACGA.................................................. 23 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTTT............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAATTTTTTTGGAAGCTACGT.................................................. 23 2 1 1.00 1 0 0 0 1 0 0
.............................................................................................TATAACTTTTTTGGAATCTAAGT.................................................. 23 3 2 1.00 2 0 0 2 0 0 0
..................................................GAGCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.................................................CAAGCGAGCAAAGAAGTAGTATT.............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGATCAAAGAAGTAGTATT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGATCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTAT............................................................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCGAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................ACGCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTT................................................................................................ 20 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCTAGCAAAGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AATCGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 0 1 0 0 0 0
...........................................................................................AATATAACTTTTTTGGAATCT...................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTAA............................................................................................... 21 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTAG............................................................................................... 21 1 1 1.00 1 0 1 0 0 0 0
..................................................AAGCGAGCAAAGACGTATTATTT............................................................................................. 23 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTATGGAATCTACG................................................... 22 2 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAACGAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGAAAAGAGGTAGTATT.............................................................................................. 22 2 1 1.00 1 0 0 1 0 0 0
..................................................AAGCGAGCAAAGCAGTAGTAGT.............................................................................................. 22 2 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTTGAAGCTACG................................................... 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAAAAGTAGTATTT............................................................................................. 23 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGTAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGTAGTGTT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.............................................................................................TATAACTTTTTTGGAAGCTA..................................................... 20 0 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAATGAAGTAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGCGAGCAAAGAAGAAGTATT.............................................................................................. 22 1 1 1.00 1 1 0 0 0 0 0
.......................................................................................................TTGGAAGGTAGGAAGAGTTGT.......................................... 21 3 1 1.00 1 0 0 1 0 0 0
....................................................GCGAGCAAAGAAGTAGTATTG............................................................................................. 21 1 1 1.00 1 1 0 0 0 0 0
..................................................AAGAGAGAAAAGAAGTAGTATTT............................................................................................. 23 2 2 0.50 1 1 0 0 0 0 0
..................................................AAGAGAGCAAAGAAGTAGTATTT............................................................................................. 23 1 2 0.50 1 1 0 0 0 0 0
..................................................AAGCGCGCACAGCAGTAGTAT............................................................................................... 21 3 3 0.33 1 0 0 1 0 0 0
..................................................AAGCGAGCGCAGAAGAAGTATTT............................................................................................. 23 3 3 0.33 1 0 0 1 0 0 0
.............................................................................................TATAACGTTTTTTGAAGATACG................................................... 22 3 3 0.33 1 0 0 1 0 0 0
................................................CTAAGTGGGCAAGGAAGTA................................................................................................... 19 3 20 0.10 2 0 0 2 0 0 0
................................................CTAAGCGGGCCAGGAAGTAG.................................................................................................. 20 3 12 0.08 1 0 0 1 0 0 0
................................................CTAAGCGGGGAACGAAGTA................................................................................................... 19 3 14 0.07 1 0 0 1 0 0 0
...........................................................................................GATATCACTTTTGTGGAAGC....................................................... 20 3 19 0.05 1 0 0 0 0 0 1
................................................CTAAGTGAGGAAGGAAGTA................................................................................................... 19 3 20 0.05 1 0 0 1 0 0 0

Anti-sense strand reads

GGCTTAGGTTAGCGCCAACGTTAGGACCGAACCCCATCCAGTAGAGGAGATTCGCTCGTTTCTTCATCATAAACAAACGAAAATTACCAGTTTATATTGAAAAAACCTTCGATGCTCCTCAACAGGAGTCGCGAATACTTTAGCTTACTAGGGAAGAGGAGTCGGA

************************************.(((.((.((((((..(((...(((((((((.(((((((...(((......)))))))))).)))))))))...)))..)))))).)).)))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total V055

head

 M058

embryo
......................................................................................................................................GTACTGAAGCTTACTAGGGA............ 20 3 4 0.25 1 1 0
.....AGGGTAGCTCCAGCGTTAG.............................................................................................................................................. 19 3 16 0.13 2 0 2
...............................................................TCATCATAAAGAAACGGCAA................................................................................... 20 3 20 0.05 1 1 0
..............................................CAGATTGGCTCGTTTCTA...................................................................................................... 18 3 20 0.05 1 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droAna3 scaffold_13417:2478447-2478612 - dan_39 confident CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCT
droBip1 scf7180000395874:49491-49664 - CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-
droKik1 scf7180000302517:1176343-1176465 + GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------
droFic1 scf7180000454073:1724075-1724180 + TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------
droEle1 scf7180000490751:1106989-1107101 + AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------
droRho1 scf7180000761121:198597-198702 - CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------
droBia1 scf7180000302069:1157334-1157434 - TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------
droTak1 scf7180000415169:850576-850717 - GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------
droEug1 scf7180000409109:6720-6831 - AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------
dm3 chrX:19445685-19445807 + dme-mir-974 Known_mirbase GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------
droSim2 x:18335048-18335156 + dsi_68 confident TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droSec2 scaffold_8:1728111-1728208 + dse_40 confident TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droEre2 scaffold_4690:9682442-9682548 + der_30 confident CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------
droWil2 scf2_1100000004909:7946617-7946740 + dwi_59 confident T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------
droVir3 scaffold_13042:917559-917647 - dvi-mir-974-2 Known_mirbase --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------
droMoj3 scaffold_6328:2908517-2908601 - dmo_160 candidate-rescued --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCTSizeHit CountTotal NormTotalM044

Female-body		M058

Embryo		V039

Embryo		V055

Head		V105

Male-body		V106

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................221355.003554101929437
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231114.0011410059117
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................22180.00801005740
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21154.00540002511
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24111.0011000074
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2219.009000054
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2318.008000170
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2114.004000040
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2013.003000120
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2212.002000020
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2112.002000020
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2411.001000001
......................................................................................................ATATAACTTTTTTGGAA-GCTA............................................................2111.001000010
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.001000010
.......................................................................................................TATAACTTTTTTGGAA-GCTACGA.........................................................2311.001000010
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2011.001000010
.........................................................AAGCGAGCAAAGAAGTAGTAG..........................................................................................................2111.001000001
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2011.001000010
...........................................................GCGAGCAAAGAAGTAGTATTG........................................................................................................2111.001000010
droBip1
CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-SizeHit CountTotal NormTotal
No Reads
droKik1
GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------SizeHit CountTotal NormTotal
No Reads
droEug1
AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dm3
GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalGSM154618

Ovary		GSM154620

Ovary		GSM154621

Ovary		GSM154622

Ovary		GSM180328

Head		GSM180329

Mixed-body		GSM180330

Embryo		GSM180331

Embryo		GSM180332

Embryo		GSM180333

Embryo		GSM180334

Larvae		GSM180335

Disc		GSM180336

Pupae		GSM180337

S2		GSM239041

Head		GSM239050

Head		GSM239051

S2		GSM239052

S2		GSM246084

Head		GSM266765

S2		GSM280082

Ovary		GSM280083

Ovary		GSM280084

Ovary		GSM280085

Testis		GSM280086

Ovary		GSM280087

S2-NP		GSM280088

S2-NP		GSM312995

Head		GSM313160

Head		GSM313161

Head		GSM313162

Head		GSM313163

Head		GSM313164

Head		GSM313165

Head		GSM343287

Embryo		GSM379050

Ovary		GSM379051

Ovary		GSM379052

Ovary		GSM379053

Ovary		GSM379054

Ovary		GSM379055

Ovary		GSM379056

Ovary		GSM379057

Ovary		GSM379058

Ovary		GSM379059

Ovary		GSM379060

Ovary		GSM379061

Ovary		GSM379062

Ovary		GSM379063

Ovary		GSM379064

Ovary		GSM379065

Ovary		GSM379066

Ovary		GSM379067

Ovary		GSM424739

S2		GSM424740

S2		GSM424741

S2		GSM467729

Female-body		GSM467730

Female-body		GSM467731

Female-body		M002

CS		M003

Male-body		M004

Male-body		M005

ML-DmD32		M006

ML-DmD32		M029

OSC		M030

OSC		M031

OSC		M032

S2-R+		M033

S2-R+		M034

S2-R+		M035

S2-R+		M036

S2-R+		M037

S2-R+		M038

S2-R+		M039

S2-R+		M048

S2-R+		OSS2

OSS		OSS6

OSS		OSS7

OSS		OSS8

OSS		S1

Head		S10

Embryo		S11

Embryo		S12

Embryo		S13

Embryo		S14

Embryo		S15

S2-GMR		S16

Kc		S17

Larvae		S18

Larvae		S19

Pupae		S2

Head		S20

Pupae		S21

Disc		S22

Head		S23

Female-body		S24

Male-body		S25

Larvae		S26

Larvae		S27

Pupae		S28

Pupae		S29

Head		S3

Male-body		S30

S2-GMR		S31

S2		S32

S2		S33

Kc		S34

Kc		S35

Kc		S4

Female-body		S5

Disc		S6

Embryo		S7

Embryo		S8

S2		S9

Embryo		SRR001337

Head		SRR001338

Head		SRR001339

Head		SRR001340

Head		SRR001341

Head		SRR001342

Head		SRR001343

Head		SRR001344

Head		SRR001345

Head		SRR001346

Head		SRR001347

Head		SRR001348

Head		SRR001349

Head		SRR001664

Head		SRR010951

Ovary		SRR010952

Ovary		SRR010953

Ovary		SRR010954

Ovary		SRR010955

Ovary		SRR010956

Ovary		SRR010957

Ovary		SRR010958

Ovary		SRR010959

Ovary		SRR010960

Ovary		SRR014268

Embryo		SRR014269

Embryo		SRR014270

Embryo		SRR014271

Embryo		SRR014272

Embryo		SRR014273

Ovary		SRR014274

Ovary		SRR014275

Ovary		SRR014276

Ovary		SRR014277

Ovary		SRR014278

Ovary		SRR014279

Ovary		SRR014280

Ovary		SRR014281

Ovary		SRR014282

Ovary		SRR023197

S2		SRR023399

S2		SRR023400

S2		SRR023402

S2		SRR023407

S2		SRR029028

S2		SRR029029

S2		SRR029030

S2		SRR029031

S2		SRR029032

S2		SRR029033

S2		SRR029608

Head		SRR029633

Head		SRR030145

gb3		SRR031692

Head		SRR031693

Head		SRR031694

Head		SRR031696

Head		SRR031697

Head		SRR031698

Head		SRR031699

Head		SRR031700

Head		SRR031701

Head		SRR031702

Head		SRR031703

Head		SRR031704

Head		SRR032092

S2		SRR032093

S2		SRR032094

S2		SRR032095

S2-NP		SRR032096

S2-NP		SRR032152

Head		SRR060643

Testis		SRR060644

Ovary		SRR060645

Testis		SRR060646

Ovary		SRR060647

Ovary		SRR060648

Ovary		SRR060649

Ovary		SRR060650

Testis		SRR060651

Ovary		SRR060652

Testis		SRR060653

Ovary		SRR065151

Ovary		SRR065152

Ovary		SRR065153

Ovary		SRR065154

Ovary		SRR065155

Ovary		SRR065800

Ovary		SRR065801

Ovary		SRR065802

Ovary		SRR065803

Ovary		SRR065804

Ovary		SRR065805

Ovary		SRR065806

Ovary		SRR065807

Ovary		SRR097865

S2-NP		SRR097866

S2-NP		SRR097867

S2-NP		SRR298536

Ovary		SRR298537

Ovary		SRR298711

Ovary		SRR298712

Ovary		SRR317110

Ovary		SRR317111

Ovary		SRR317112

Ovary		SRR317113

Ovary		SRR317114

Ovary		SRR317115

Ovary		SRR317116

Ovary		SRR317117

Ovary		SRR341115

S2		SRR341116

S2		SRR341117

S2		SRR341118

S2		SRR351332

Mixed-body		SRR351333

Mixed-body		T004

OSC		T005

CME-L1		V001

Embryo		V002

Embryo		V003

S2		V006

Female-body		V007

Head		V008

S2		V009

CME-L1		V010

ML-DmD20-C5		V011

Sg4		V012

Male-body		V013

Head		V014

DTT		V015

DreRFHV		V018

Kc167		V019

GM2		V020

S2-R+		V021

ML-DmD21		V022

ML-DmD32		V023

Head		V024

Kc167		V025

S2-R+		V026

1182-2H		V027

ML-DmD21		V028

CME-W1-Cl.8+		V029

ML-DmD9		V030

ML-DmD8		V031

GM2		V032

S1		V033

CME-W1-Cl.8+		V034

ML-DmD16-C3		V035

ML-DmD32		V036

ML-DmD20-C5		V037

S2		V038

S2		V063

Ovary		V0632

Ovary		V064

Ovary		V0642

Ovary		V065

Ovary		V0652

Ovary		V066

Ovary		V0662

Ovary		V067

S2-NP		V073

mbn2		V074

S3		V075

ML-DmBG1-C1		V076

ML-DmBG3-C2		V077

Head		V078

Head		V079

Head		V080

Head		V081

Embryo		V082

Embryo		V083

Male-body		V084

Female-body		V085

CME-W2		V086

Female-body		V088

Ovary		V0882

Ovary		V089

Ovary		V0892

Ovary		V090

Male-body		V091

fGS/OSS		V092

Male-body		V093

Male-body		V094

S2-R+		V095

S2-R+		V096

Ovary		V097

Ovary		V098

Ovary		V125

ML-DmD9		V126

CME-L1		V127

G2		V128

S3		V129

ML-DmBG1-C1		V130

ML-DmBG3-C2		V131

ML-DmD16-C3		V132

ML-DmD32		V133

Sg4		V134

ML-DmD8		V135

CME-W2		V136

Male-body		V137

Head		V138

Male-body		V139

Female-body		V140

Female-body		V141

Female-body		V142

Female-body		V144

OSC		V145

S2		V146

S1		V147

1182-2H		V148

mbn2		GSM1528798

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231124226.0012422600000000000200000000000000000000000000002000100000000000000000000000000000000001000010002010023007001002001000011000300001000100000000000000000000110011620000000000000003010008010004000000291603919000023904883100000010000071007240100000001000000000000011016400161010210100024701253102100332124612041103022310810237090002039319496830211056261063026224037155201435361112731226492400
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................22198506.00985060000000000020000000000011000000000000000010001000000000000000000000000000000000000007000100200700400233000000005000000002010200000000000000000000000003000000000000000200100071100040000000208024190000275024911000000300000700041811000000000000000000001010073002200201200000135098700401022403190301800241263061891700000325066653500012373385459462313017582149114372192950729815390
.......................................................................................................TATAACTTCATTGGAA-GCTAAG..........................................................2213390.00339000000000000100000000000420000000000000000201000000100000000000000000000000000000000000000000006004000000002010080000000000100000000000000000000000000080000000000000000101000101000200000002692163000022002720000000000004900011000000100000000000000000000090040010000000004024110000036000000040020000112331000000360364600020001776100000305026000000100120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................2112894.002894000000000000000000000006000000000000000000000000000000000000000000000000000000000000000000000100200000000000001000000000000100000000000000000000000000000000000000000010000020000000000000241153000021016900000000000000000000000000000000000000000000001000002100000000201260000000100000001000110100140100000120283000000032091200000210409000000155050
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................241598.00598000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000604100000052000000000000000001000000000000000000000000000000000000100000000060000000000000000000000000000000003010400000004390000100010300110025000
.......................................................................................................TATAACTTCATTGGAA-GCTA............................................................201383.00383000000000000000000000008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000020000010000000000000130800001409000000000000000000000000000000000100000000000010010000000000000071000000010000000200001000050100000405300000001890000000000100100040010
......................................................................................................ATATAACTTCATTGGAA-GCTAAG..........................................................231347.0034700000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000000000200000000000000000000000000000000000080800001401100000000000001000010000000000000000000000000002000000000000000002800000000000000000000000404000000200330002000241000000100000000009000
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................241316.00316000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000204000000300000000000000000000000000000000000000000000001000000000000000002000000000000000000000000010000000001000000002870000003000000000012000
......................................................................................................ATATAACTTCATTGGAA-GCTA............................................................211281.00281000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000100000000000000000000908000010010000000000000000000000000000000000000000000000000010000000000000041000000110000000000000010020000000103200000011630000000000100100022000
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................221270.00270000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000007000000400000000000000000000000000000000000000000000000000000000000000008000000000000000000000000010000000000100000002330000002000100000011000
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................191267.002670000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000001030000101000000000000000000100000000000000000000000000000000000000000000025000000000000000000000000010100000201100000111831010102001200000035000
......................................................................................................ATATAACTTCATTGGAA-GCT.............................................................201158.00158000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000701000000200000000000000000000000000000000000000000000000000000000000000003600000000000000010000000000000000000310000000810010000000000000023000
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................201145.001450000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001100000100000000000000011000030100000000000000000000000000000000000000000000000000000000000000000900000000000000000000000001000000000110000001920000001001000000011000
.......................................................................................................TATAACTTCATTGGAA-GCTAA...........................................................211134.001340000000000000000000000040000000000000000000000000000000000000000000000000000000000000000000003002000000000000000000000000000000000000000000000000000000000000000000000100000100000000000009060000130170000000000000000000000000000000000000000000000000000000000000000130000000000000001000000000100000001002000000054000000000000000006000
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................241118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000800000010000000000000000000000000000000000000000000000000000000000000000010000000000000001000000000000000002011000001086000000100030000003000
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................221118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000020110000001104000000001000000005000
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................231112.0011200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000030200000000811000002000000000014000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGT.........................................................231105.0010500000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000060100001010000000000000000001000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000077000000000000000005000
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................21198.00980000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000004000000000000000000000000000000000000000000000000000000000000001010000000000000000000000000000000001010000000082000000000010000003000
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................23175.007500000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000011000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000001010000000051000000100000000007000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGA.........................................................23172.007200000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000010010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040200001012000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000001002000000044000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCT.............................................................19165.006500000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000002000000000000000000000000000000000000000000000000000000000000100003050000000000000000000000000000000000000000000000000000000000000000360000000000000000000000000000000000021000000000000000000000000013000
......................................GTCACCGGTCATGTCCTCC...............................................................................................................................19163.006300000000000000000000000400000000000000000000000000000000000000000000000000000000000010000001010010011000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000010000000000000000000000000000000000000000000000000000000000000000700000000000000000000000000000000000000000000180000000000000000025010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................24162.00620000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000000010000000056000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAG.............................................................................................................18140.00400000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000503000000000000000000000000000000000000000000000000000000000000000050000000000000000000000000010000000021000000010000000000010000008000
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................23138.00380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000030000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000031000000000000000001000
......................................................................................................ATATAACTTCATTGGAA-GCTAA...........................................................22131.00310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002100000204000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000019000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................23126.0026000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000700000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000006000000000000000009000
.....................................TGTCACCGGTCATGTCCTCC...............................................................................................................................20125.0025000000000000000000000004000000000000000000000000000000000000000000000000000000000001000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000008000000000000000007000
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................22121.00210000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000018000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAA..........................................................22114.0014000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000010300000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000002000000003000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTATC......................................................................................................25113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGC.........................................................23113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000010000000000000000000000
.............................................................GAGCAAAGAAGTAGTATTT........................................................................................................19112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000103000010300000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000003000000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................21112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000100000009000000000000000000000
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................18110.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000102000010100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000003000
.......................................TCACCGGTCATGTCCTCC...............................................................................................................................1819.009000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000100000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000000000000000000000000000000000000000000001000
............................................................CGAGCAAAGAAGTAGTATTT........................................................................................................2019.009000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000008000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATG.........................................................................................................2218.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000104000000001000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGA.........................................................2418.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006200000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2018.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1917.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2017.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTGTG.....................................................................................................2617.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTAC..........................................................................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000004000000000000000001000
........................................................................................................ATAACTTCATTGGAA-GCTAAG..........................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000005000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGT.........................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
..............................................................AGCAAAGAAGTAGTATTT........................................................................................................1815.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAT...........................................................2115.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTAA......................................................................................................2515.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000001000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGC............................................................................................................1914.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000100000000002000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAT...........................................................2214.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
droSim2
TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM023

Head		M024

Male-body		M025

Embryo		M053

Female-body		O001

Testis		O002

Head		SRR553485

Ovary		SRR553486

Ovary		SRR553487

Ovary		SRR553488

Ovary		SRR618934

Ovary		V044

Embryo		SRR902008

Ovary		SRR902009

Testis		SRR1275487

Male larvae		SRR1275485

Male prepupae		SRR1275483

Male prepupae
.........................................................AAGCGAGCAAAGAAGTGGTATT.........................................................................................................2211194.001194030004811024112300641001
.........................................................AAGCGAGCAAAGAAGTGGTAT..........................................................................................................211871.00871020017930000200685000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221431.004310110235584436140024000
.........................................................AAGCGAGCAAAGAAGTGGTA...........................................................................................................201270.0027000002253000020040000
.........................................................AAGCGAGCAAAGAAGTGGTATTT........................................................................................................231225.0022502005210000200168000
..........................................................AGCGAGCAAAGAAGTGGTATTT........................................................................................................221139.0013903001300000000123000
.......................................................................................................TATAACTTCTTTGAAA-GC..............................................................181136.001360100133200000000000
.........................................................AAGCGAGCAAAGAAGTGG.............................................................................................................181118.001180000116100001000000
.......................................................................................................TATAACTTCTTTGAAA-GCTA............................................................20190.0090000088100000001000
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................21183.0083000082100000000000
..........................................................AGCGAGCAAAGAAGTGGTATT.........................................................................................................21176.0076010080000000067000
.......................................................................................................TATAACTTCTTTGAAA-GCT.............................................................19163.0063030058100001000000
......................................................................................................ATATAACTTCTTTGAAA-GCTAG...........................................................22157.00570000231000000033000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................23147.0047000047000000000000
.........................................................AAGCGAGCAAAGAAGTGGT............................................................................................................19139.0039000038000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTT.......................................................................................................24126.0026000000000000026000
..........................................................AGCGAGCAAAGAAGTGGTAT..........................................................................................................20116.0016000030000000013000
.........................................................AAGCGAGCAAAGAAGTGGTATTA........................................................................................................23116.0016000000000000016000
..........................................................AGCGAGCAAAGAAGTGGTATTTT.......................................................................................................23115.0015000000000000015000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................23112.001200009000010002000
..........................................................AGCGAGCAAAGAAGTGGTA...........................................................................................................19110.001000006000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2117.00701005000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGG..........................................................2117.00700007000000000000
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1816.00613002000000000000
......................................................................................................ATATAACTTCTTTGAAA-G...............................................................1816.00600006000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGG..........................................................1814.00400000000004000000
.........................................................AAGCGAGCAAAGAAGTGGTAA..........................................................................................................2114.00400000000000004000
.........................................................AAGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2414.00400000000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCT.............................................................2014.00412001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAA.......................................................................................................2413.00300000000000003000
......................................................................................................ATATAACTTCTTTGAAA-GC..............................................................1913.00300003000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2513.00300000000000003000
.........................................................AAGCGAGCAAAGAAGTGGTATA.........................................................................................................2213.00300000000000003000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGA.........................................................2312.00200000000001001000
..........................................................AGCGAGCAAAGAAGTGGTATTTG.......................................................................................................2312.00200000000000002000
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1912.00201001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTT...........................................................................................................2012.00200000000000002000
........................................................................................................ATAACTTCTTTGAAA-GCTAG...........................................................2012.00200002000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTA........................................................................................................2212.00200000000000002000
..........................................................AGCGAGCAAAGAAGTGGTT...........................................................................................................1911.00100000000000001000
.....................................................................................................AATATAACTTCTTTGAAA-GCTAG...........................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2411.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTAAA.........................................................................................................2211.00100000000000001000
...........................................................GCGAGCAAAGAAGTGGTATTT........................................................................................................2111.00100000000000001000
...............................................................GCAAAGAAGTGGTATT.........................................................................................................1611.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATCA........................................................................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2411.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGT............................................................................................................1811.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGC......................................................................................................2511.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTAA..........................................................................................................2011.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGGT.........................................................2211.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATAA........................................................................................................2311.00100000000000001000
............................................................CGAGCAAAGAAGTGGTAT..........................................................................................................1811.00100001000000000000
...................................................................................................CAAATATAACTTCTTTGAAA-GC..............................................................2211.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATAAA.......................................................................................................2411.00100000000000001000
.......................................TCACTGGTCGTGTCCTCCA..............................................................................................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAAA......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGT...............................................................................................................1611.00100000000001000000
............................................................CGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2311.00100001000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGGT.........................................................1911.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2611.00100001000000000000
............................................................CGAGCAAAGAAGTGGTATTTGCGT....................................................................................................2411.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATA.........................................................................................................2111.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTA............................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTA..............................................................................................................1711.00100000000000001000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGA..........................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGC.............................................................................................................1820.50100000000001000000
.........................................................AAGCGAGCAAAGAAG................................................................................................................1520.50100000000001000000
.............................................................GAGCAAAGAAGTGGT............................................................................................................1520.50100000000001000000
...........................................................................................................ACTTCTTTGAAA-GCTAGAA.........................................................1950.20100000000000001000
droSec2
TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM054

Female-body		V113

Male-body		V114

Embryo		V115

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2211247.001247211901144
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231186.00186118113
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221105.00105486105
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21135.003513301
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................22118.001801710
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................2116.0060600
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2015.0050500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2113.0031101
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1812.0020011
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................2312.0020110
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1912.0020200
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2212.0020200
........................................................CAAGCGAGCAAAGAAGTAGTAT..........................................................................................................2211.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................2311.0010100
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1911.0010010
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010001
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0011000
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2411.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2111.0010010
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGA..........................................................2211.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGC.........................................................2311.0011000
..........................................................AGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2311.0010100
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010100
droEre2
CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM055

Female-body		M057

Embryo		V060

Head		V040

Embryo		V107

Male-body		V108

Head		GSM1528801

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2213284.003284507029533190
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................2311614.0016142011014581430
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................221178.001786050155120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21185.008500008410
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24143.004300004120
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................20110.001000001000
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2317.0070000700
......................................................................................................ATATAACTTTTTTGGAA-GCTACG..........................................................2316.0060000420
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................2415.0050000500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2115.0052000300
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1914.0040000400
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2413.0030000300
......................................................................................................ATATAACTTTTTTGGAA-GCTACGT.........................................................2412.0020000200
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2012.0020000200
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1912.0020000110
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2212.0020000200
........................................................CAAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2511.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................2311.0010000100
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2111.0010000100
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2211.0010000100
.........................................................................................................TAACTTTTTTGGAA-GCTACG..........................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.0010000010
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010000100
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010000010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................2411.0010000010
..........................................................AGCGAGCAAAGAAGTAGTAT..........................................................................................................2011.0010000100
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTAA.......................................................................................................2411.0010000100
........................................................................................................ATAACTTTTTTGGAA-GCTACG..........................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2211.0010000100
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................2211.0010000100
droWil2
T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------SizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
.........................................................AAGCGAGCAAGAAAGTGGTATT.........................................................................................................221662.006621164974
.........................................................AAGCGAGCAAGAAAGTGGTATTT........................................................................................................231150.001500114432
.........................................................AAGCGAGCAAGAAAGTGGTAT..........................................................................................................21151.0051005001
.........................................................AAGCGAGCAAGAAAGTGGTATTTC.......................................................................................................2415.00500500
.........................................................AAGCGAGCAAGAAAGTGGTA...........................................................................................................2015.00500500
.......................................................................................................TATAACTTTTTTGGAA-GCTACA..........................................................2215.00500410
.........................................................AAGCGAGCAAGAAAGTGGTATTTCC......................................................................................................2512.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATC.........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTA........................................................................................................2312.00200200
..........................................................AGCGAGCAAGAAAGTGGTATTT........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTC........................................................................................................2311.00100100
.........................................................AAGCGAGCAAGAAAGTGGTATTTT.......................................................................................................2411.00100010
.........................................................AAGCGAGCAAGAAAGTGGTATTAA.......................................................................................................2411.00100100
..........................................................AGCGAGCAAGAAAGTGGTATTTA.......................................................................................................2311.00100100
droVir3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------SizeHit CountTotal NormTotalM027

Male-body		M028

Head		M047

Female-body		M061

Embryo		SRR060654

Ovary		SRR060655

Testis		SRR060656

Ovary		SRR060657

Testis		SRR060658

Ovary		SRR060659

Testis		SRR060660

Ovary		SRR060661

Embryo		SRR060662

Embryo		SRR060663

Embryo		SRR060664

Male-body		SRR060665

Female-body		SRR060666

Male-body		SRR060667

Female-body		SRR060668

Male-body		SRR060669

Female-body		SRR060670

Testis		SRR060671

Male-body		SRR060672

Female-body		SRR060673

Ovary		SRR060674

Ovary		SRR060675

Ovary		SRR060676

Ovary		SRR060677

Ovary		SRR060678

Testis		SRR060679

Testis		SRR060680

Testis		SRR060681

Testis		SRR060682

Embryo		SRR060683

Testis		SRR060684

Embryo		SRR060685

Embryo		SRR060686

Embryo		SRR060687

Embryo		SRR060688

Ovary		SRR060689

Testis		SRR1106712

embryo_0-2h		SRR1106713

embryo_0-2h		SRR1106714

embryo_2-4h		SRR1106715

embryo_4-6h		SRR1106716

embryo_4-6h		SRR1106717

embryo_6-8h		SRR1106718

embryo_6-8h		SRR1106719

embryo_8-10h		SRR1106720

embryo_8-10h		SRR1106721

embryo_10-12h		SRR1106722

embryo_10-12h		SRR1106723

embryo_12-14h		SRR1106724

embryo_12-14h		SRR1106725

embryo_14-16h		SRR1106726

embryo_14-16h		SRR1106727

larvae		SRR1106728

larvae		SRR1106729

mixed whole adult body		SRR1106730

embryo_16-30h		V047

Embryo		V053

Head		V116

Male-body		GSM1528803

follicle cells		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
.........................................................GAGCGAGCAGAGAAGTATTAT..........................................................................................................21130295.0030295601009735223105332591201120003010696187699636161201793686116246132765100000000000000000101034000012010100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATG..........................................................2319970.0099705013053007570117000010002051031421122317178665728040404001429350000000000000000020002000221001000000010
.......................................................................................................TAAGACTTTTTTGGTTCGCTAT...........................................................2215421.00542100200147271054000000002019400021111515106146713820140000003610000000000000000000001800000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATC.........................................................................................................2214748.00474820120114821321900000000003992010000902863408118002620000018100000000000000000000016200000000000000000
.........................................................GAGCGAGCAGAGAAGTATTC...........................................................................................................2014144.0041441019041892073533000000010237002011065987832110230169000002050000000000000000000006300000010111200000
.........................................................GAGCGAGCAGAGAAGTATTA...........................................................................................................2013985.003985101046506121830000000000167001111377394331811280134000011210000000000000000000007600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAT...........................................................2313562.003562001021002300380000000000115002022010037672788690115001042170000000000000000000001000000020002000000
......................................................................................................ATAAGACTTTTTTGGTTCGCT.............................................................2113060.0030607030330908118510000000101240041213566552183644014511000324000000000000000000000900010012012200000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATG..........................................................2412923.0029231502028941804000000001001070000421885519224687078000032240000000000000000000001301300001000000000
.........................................................GAGCGAGCAGAGAAGTATT............................................................................................................1912778.00277800202691987841720001000006800421433283698629705000000400000000000000000000013600000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTT........................................................................................................2311645.00164501000430193112610000001116301000023913188431803700000390000000000000000000002300000010000000000
.........................................................GAGCGAGCAGAGAAGTATTATCC........................................................................................................2311201.001201106016700037000000000015700001001281659934109500000620000000000000000000004100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTA............................................................2111039.001039003005709080000000000580010010229192972550390000087000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATT.........................................................................................................2211011.00101100102140185211300001200003600200102221584118001300000190000000000000000000011800000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCT.............................................................201959.00959100001170260210000000000540020010152183691860520000091000000000000000000000100000001110000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTA............................................................221604.00604001002408013000000000090010000164120351200260000069000000000000000000000700000030103000000
.........................................................GAGCGAGCAGAGAAGTATTATTC........................................................................................................231540.005401000027011340000000000290000000128873813201400000270000000000000000010001400000050100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGT.........................................................241522.00522000012622903000000000002800000028574221180280000075000000000000000000000100001000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATC..........................................................231417.0041710001510040000000000281000000836447980210000060000000000000000001000100000000100000000
.........................................................GAGCGAGCAGAGAAGTAT.............................................................................................................181322.0032200001100118548100000000040021210385192802000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAA..........................................................................................................211295.0029500000201016000000000012000011147662910017121004000000000000000000000200001000000000000
.........................................................GAGCGAGCAGAGAAGTATTCC..........................................................................................................211241.002410000026001140000000000190000000244617600150000013000000000000000000000600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTC............................................................221222.00222800002400020000000000140000000262523480140000035000000000000000000000300000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGT.........................................................251217.0021700000120110700000000001000000006636941040000021000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTT...........................................................................................................201203.00203001001146036100000000040000001234293105000000000000000000000000000200000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTT............................................................221188.001880000019100100000000004000000038311352060000021000000000000000001000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATC..........................................................241151.00151000004000000000000007000000047231045040000010000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTTC.......................................................................................................241144.001440000030001000000000101200000003031933010000002000000000000000000000300000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCC.........................................................241130.0013000200700000000000000600000001422224107000008000000000000000000000001000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTC............................................................21199.009900000800000000000000100000100627915090000014000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGC..............................................................20199.00990010070311000000000040000100202981803000003000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGA.........................................................24182.00820000020001000000000010000000251252702000006000000000000000000000000010000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATT..........................................................23171.00710000010003000000000010000000014931708000005000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATG..........................................................18159.005900000104030000000000600000009371205000008000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATC............................................................................................................19151.0051000002010800000000005000000051021203000001000000000000000000000100000000100000000
.........................................................GAGCGAGCAGAGAAGTATTCA..........................................................................................................21151.005100200100060001000000300000115611700000004000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATCC...........................................................................................................20149.004900000100180000000000400000007931105000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTT............................................................21139.00390000060000000000000010000000835901000006000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTC........................................................25136.00360000010001000000000020000000891206000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTC.........................................................24136.003600000000010000000000200000009631500000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTAT..........................................................................................................20132.00320000020304000000000020000000440801000003000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGC..............................................................19132.003200000002000000000000100000001250901000000000000000000000000000000000002000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATT..........................................................24131.00310000020000000000000030000000862505000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCC.........................................................25130.0030000000000000000000000000000016101000000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCG...............................................................19128.002800000003010000000000000000006313010000010000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAC..........................................................................................................21128.00280000000403000000000060000000212601000003000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATC.........................................................................................................18127.00270000020001000000000080000000230302000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATA..........................................................23127.00270000000001000000000010000000545800000003000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTAT..........................................................................................................18123.002300100004000000010000100000001112200000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCC.......................................................26122.00220000000000000000000020000000541701000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATTC.........................................................25122.002200000100000000000000000000001050500000001000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTATG..........................................................22121.00210000000000000000000000000000643300000005000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATA.........................................................................................................22121.00210000000000000000000010000000930600000001000000000000000000000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCC.............................................................21121.00212000000000000000000010000000540801000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAAA.........................................................................................................22120.00200000000000012000000000000000223601000000000000000000000000000000002000000000010
.........................................................GAGCGAGCAGAGAAGTATTATCCC.......................................................................................................24118.00180000010000000000000050000000220601000001000000000000000000000000000000000000000
...........................................................................................................ACTTTTTTGGTTCGCTATG..........................................................19118.00180000010000000000000030000100162200000002000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTAT..........................................................................................................19117.00170000000302000000000000000000351300000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCT.........................................................24117.00170000010000000000000000000000224700000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAG..........................................................................................................21117.00170000020401000000000010010000102302000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTTC..........................................................................................................21117.00170000000004000000000000000000251301000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGC.........................................................24116.00160000000000000000000000000000241800000001000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTTC...........................................................23115.00150000040000000000000010000000310301000002000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCG...............................................................18115.00150000020000000000000000000000350201000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTC........................................................26115.00150000010000000000000010000000252400000000000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTAT...........................................................21115.00150010000000000000000000000000452300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTCC.......................................................................................................24113.00130000010000000000000010000000211601000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTCCC.........................................................................................................22112.00120000000000000000000000000000051300000002000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCC.............................................................20112.00121010000000000000000000000000131300000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCT.........................................................25111.00110000000000000000000000000000231500000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATCA........................................................................................................2319.0090000000000000000000010000000212300000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATA..........................................................2419.0090000000000000000000000000000300411000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAA...........................................................2219.0090000000000000000000000000000320301000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCC.......................................................2718.0080000000000000000000000000000040200000001000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAC...........................................................2218.0080001000000000000000020000000010100000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGA.........................................................2518.0080000000000000000000000010000111300000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTG...........................................................................................................2018.0080000000001000000000020000000100300000001000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTATC.........................................................................................................1917.0070000000000000000000010000000120003000000000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTC...........................................................................................................1817.0070000000000000000000000000000041101000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTT.........................................................2417.0070000000301000000000020000000000001000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGC.........................................................2517.0070000000000000000000000000000121200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTTC...........................................................2217.0070000000000000000000000000000101201000002000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATCC........................................................................................................1917.0070000010001000000000010000000001101000001000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATTT........................................................................................................1916.0060000000300000000000000000000010100000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTT........................................................2516.0060000001000000000000000000000310100000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAA........................................................2516.0060000000001000000000000000000000000000000000000000000000000000001013000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGG.........................................................2415.0050000000000000000000000000000200300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACC.........................................................................................................2215.0050000010000000000000020000000010000000001000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTATC.........................................................................................................2015.0050000000000000000000010000000200200000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTA...........................................................................................................1915.0050020000000000000000000000000101100000000000000000000000000000000000000000000000
...............................................................................TGCGTGAATC----TGATATCAAA.................................................................................2014.0040000000000000000000020000000010000000000000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATGT.........................................................1914.0040000000100000000000010000000000101000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAA...........................................................2314.0040000000000000000000000000000300100000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTATC.........................................................................................................2114.0040000000000000000000010000000100200000000000000000000000000000000000000000000000
............................................................................................................CTTTTTTGGTTCGCTATC..........................................................1814.0040000010000000000000010000000200000000000000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATT.........................................................................................................1814.0040000010100000000000000000000100100000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCT.......................................................2714.0040000000000000000000000000000001200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAAA.......................................................2614.0040000000000000000000000000000001000000000000000000000000000000000012000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCCC........................................................2514.0040000000000000000000000000000100201000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCT.......................................................2613.0030000000000000000000000000000100000000002000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACCC........................................................................................................2313.0030000000000000000000010000000000200000000000000000000000000000000000000000000000
droMoj3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------SizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
.........................................................GAGCGAGCAGAGAAGTATT-A..........................................................................................................201112.0011200120109
.........................................................GAGCGAGCAGAGAAGTATT-...........................................................................................................19136.00360001035
.........................................................GAGCGAGCAGAGAAGTATT-T..........................................................................................................20113.00130000013
.........................................................GAGCGAGCAGAGAAGTATT-AA.........................................................................................................21112.00120010011
.........................................................GAGCGAGCAGAGAAGTATT-C..........................................................................................................2018.008100007
.........................................................GAGCGAGCAGAGAAGTATT-TT.........................................................................................................2112.002000002
.........................................................GAGCGAGCAGAGAAGTATC-...........................................................................................................1911.001000001
.........................................................GAGCGAGCAGAGAAGTATT-TC.........................................................................................................2111.001000001

Generated: 10/20/2015 at 07:49 PM

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droAna3 scaffold_13417:2478447-2478612 - dan_39 confident CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCT
droBip1 scf7180000395874:49491-49664 - CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-
droKik1 scf7180000302517:1176343-1176465 + GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------
droFic1 scf7180000454073:1724075-1724180 + TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------
droEle1 scf7180000490751:1106989-1107101 + AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------
droRho1 scf7180000761121:198597-198702 - CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------
droBia1 scf7180000302069:1157334-1157434 - TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------
droTak1 scf7180000415169:850576-850717 - GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------
droEug1 scf7180000409109:6720-6831 - AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------
dm3 chrX:19445685-19445807 + dme-mir-974 Known_mirbase GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------
droSim2 x:18335048-18335156 + dsi_68 confident TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droSec2 scaffold_8:1728111-1728208 + dse_40 confident TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droEre2 scaffold_4690:9682442-9682548 + der_30 confident CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------
droWil2 scf2_1100000004909:7946617-7946740 + dwi_59 confident T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------
droVir3 scaffold_13042:917559-917647 - dvi-mir-974-2 Known_mirbase --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------
droMoj3 scaffold_6328:2908517-2908601 - dmo_160 candidate-rescued --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCTSizeHit CountTotal NormTotalM044

Female-body		M058

Embryo		V039

Embryo		V055

Head		V105

Male-body		V106

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................221355.003554101929437
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231114.0011410059117
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................22180.00801005740
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21154.00540002511
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24111.0011000074
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2219.009000054
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2318.008000170
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2114.004000040
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2013.003000120
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2212.002000020
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2112.002000020
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2411.001000001
......................................................................................................ATATAACTTTTTTGGAA-GCTA............................................................2111.001000010
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.001000010
.......................................................................................................TATAACTTTTTTGGAA-GCTACGA.........................................................2311.001000010
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2011.001000010
.........................................................AAGCGAGCAAAGAAGTAGTAG..........................................................................................................2111.001000001
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2011.001000010
...........................................................GCGAGCAAAGAAGTAGTATTG........................................................................................................2111.001000010
droBip1
CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-SizeHit CountTotal NormTotal
No Reads
droKik1
GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------SizeHit CountTotal NormTotal
No Reads
droEug1
AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dm3
GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalGSM154618

Ovary		GSM154620

Ovary		GSM154621

Ovary		GSM154622

Ovary		GSM180328

Head		GSM180329

Mixed-body		GSM180330

Embryo		GSM180331

Embryo		GSM180332

Embryo		GSM180333

Embryo		GSM180334

Larvae		GSM180335

Disc		GSM180336

Pupae		GSM180337

S2		GSM239041

Head		GSM239050

Head		GSM239051

S2		GSM239052

S2		GSM246084

Head		GSM266765

S2		GSM280082

Ovary		GSM280083

Ovary		GSM280084

Ovary		GSM280085

Testis		GSM280086

Ovary		GSM280087

S2-NP		GSM280088

S2-NP		GSM312995

Head		GSM313160

Head		GSM313161

Head		GSM313162

Head		GSM313163

Head		GSM313164

Head		GSM313165

Head		GSM343287

Embryo		GSM379050

Ovary		GSM379051

Ovary		GSM379052

Ovary		GSM379053

Ovary		GSM379054

Ovary		GSM379055

Ovary		GSM379056

Ovary		GSM379057

Ovary		GSM379058

Ovary		GSM379059

Ovary		GSM379060

Ovary		GSM379061

Ovary		GSM379062

Ovary		GSM379063

Ovary		GSM379064

Ovary		GSM379065

Ovary		GSM379066

Ovary		GSM379067

Ovary		GSM424739

S2		GSM424740

S2		GSM424741

S2		GSM467729

Female-body		GSM467730

Female-body		GSM467731

Female-body		M002

CS		M003

Male-body		M004

Male-body		M005

ML-DmD32		M006

ML-DmD32		M029

OSC		M030

OSC		M031

OSC		M032

S2-R+		M033

S2-R+		M034

S2-R+		M035

S2-R+		M036

S2-R+		M037

S2-R+		M038

S2-R+		M039

S2-R+		M048

S2-R+		OSS2

OSS		OSS6

OSS		OSS7

OSS		OSS8

OSS		S1

Head		S10

Embryo		S11

Embryo		S12

Embryo		S13

Embryo		S14

Embryo		S15

S2-GMR		S16

Kc		S17

Larvae		S18

Larvae		S19

Pupae		S2

Head		S20

Pupae		S21

Disc		S22

Head		S23

Female-body		S24

Male-body		S25

Larvae		S26

Larvae		S27

Pupae		S28

Pupae		S29

Head		S3

Male-body		S30

S2-GMR		S31

S2		S32

S2		S33

Kc		S34

Kc		S35

Kc		S4

Female-body		S5

Disc		S6

Embryo		S7

Embryo		S8

S2		S9

Embryo		SRR001337

Head		SRR001338

Head		SRR001339

Head		SRR001340

Head		SRR001341

Head		SRR001342

Head		SRR001343

Head		SRR001344

Head		SRR001345

Head		SRR001346

Head		SRR001347

Head		SRR001348

Head		SRR001349

Head		SRR001664

Head		SRR010951

Ovary		SRR010952

Ovary		SRR010953

Ovary		SRR010954

Ovary		SRR010955

Ovary		SRR010956

Ovary		SRR010957

Ovary		SRR010958

Ovary		SRR010959

Ovary		SRR010960

Ovary		SRR014268

Embryo		SRR014269

Embryo		SRR014270

Embryo		SRR014271

Embryo		SRR014272

Embryo		SRR014273

Ovary		SRR014274

Ovary		SRR014275

Ovary		SRR014276

Ovary		SRR014277

Ovary		SRR014278

Ovary		SRR014279

Ovary		SRR014280

Ovary		SRR014281

Ovary		SRR014282

Ovary		SRR023197

S2		SRR023399

S2		SRR023400

S2		SRR023402

S2		SRR023407

S2		SRR029028

S2		SRR029029

S2		SRR029030

S2		SRR029031

S2		SRR029032

S2		SRR029033

S2		SRR029608

Head		SRR029633

Head		SRR030145

gb3		SRR031692

Head		SRR031693

Head		SRR031694

Head		SRR031696

Head		SRR031697

Head		SRR031698

Head		SRR031699

Head		SRR031700

Head		SRR031701

Head		SRR031702

Head		SRR031703

Head		SRR031704

Head		SRR032092

S2		SRR032093

S2		SRR032094

S2		SRR032095

S2-NP		SRR032096

S2-NP		SRR032152

Head		SRR060643

Testis		SRR060644

Ovary		SRR060645

Testis		SRR060646

Ovary		SRR060647

Ovary		SRR060648

Ovary		SRR060649

Ovary		SRR060650

Testis		SRR060651

Ovary		SRR060652

Testis		SRR060653

Ovary		SRR065151

Ovary		SRR065152

Ovary		SRR065153

Ovary		SRR065154

Ovary		SRR065155

Ovary		SRR065800

Ovary		SRR065801

Ovary		SRR065802

Ovary		SRR065803

Ovary		SRR065804

Ovary		SRR065805

Ovary		SRR065806

Ovary		SRR065807

Ovary		SRR097865

S2-NP		SRR097866

S2-NP		SRR097867

S2-NP		SRR298536

Ovary		SRR298537

Ovary		SRR298711

Ovary		SRR298712

Ovary		SRR317110

Ovary		SRR317111

Ovary		SRR317112

Ovary		SRR317113

Ovary		SRR317114

Ovary		SRR317115

Ovary		SRR317116

Ovary		SRR317117

Ovary		SRR341115

S2		SRR341116

S2		SRR341117

S2		SRR341118

S2		SRR351332

Mixed-body		SRR351333

Mixed-body		T004

OSC		T005

CME-L1		V001

Embryo		V002

Embryo		V003

S2		V006

Female-body		V007

Head		V008

S2		V009

CME-L1		V010

ML-DmD20-C5		V011

Sg4		V012

Male-body		V013

Head		V014

DTT		V015

DreRFHV		V018

Kc167		V019

GM2		V020

S2-R+		V021

ML-DmD21		V022

ML-DmD32		V023

Head		V024

Kc167		V025

S2-R+		V026

1182-2H		V027

ML-DmD21		V028

CME-W1-Cl.8+		V029

ML-DmD9		V030

ML-DmD8		V031

GM2		V032

S1		V033

CME-W1-Cl.8+		V034

ML-DmD16-C3		V035

ML-DmD32		V036

ML-DmD20-C5		V037

S2		V038

S2		V063

Ovary		V0632

Ovary		V064

Ovary		V0642

Ovary		V065

Ovary		V0652

Ovary		V066

Ovary		V0662

Ovary		V067

S2-NP		V073

mbn2		V074

S3		V075

ML-DmBG1-C1		V076

ML-DmBG3-C2		V077

Head		V078

Head		V079

Head		V080

Head		V081

Embryo		V082

Embryo		V083

Male-body		V084

Female-body		V085

CME-W2		V086

Female-body		V088

Ovary		V0882

Ovary		V089

Ovary		V0892

Ovary		V090

Male-body		V091

fGS/OSS		V092

Male-body		V093

Male-body		V094

S2-R+		V095

S2-R+		V096

Ovary		V097

Ovary		V098

Ovary		V125

ML-DmD9		V126

CME-L1		V127

G2		V128

S3		V129

ML-DmBG1-C1		V130

ML-DmBG3-C2		V131

ML-DmD16-C3		V132

ML-DmD32		V133

Sg4		V134

ML-DmD8		V135

CME-W2		V136

Male-body		V137

Head		V138

Male-body		V139

Female-body		V140

Female-body		V141

Female-body		V142

Female-body		V144

OSC		V145

S2		V146

S1		V147

1182-2H		V148

mbn2		GSM1528798

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231124226.0012422600000000000200000000000000000000000000002000100000000000000000000000000000000001000010002010023007001002001000011000300001000100000000000000000000110011620000000000000003010008010004000000291603919000023904883100000010000071007240100000001000000000000011016400161010210100024701253102100332124612041103022310810237090002039319496830211056261063026224037155201435361112731226492400
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................22198506.00985060000000000020000000000011000000000000000010001000000000000000000000000000000000000007000100200700400233000000005000000002010200000000000000000000000003000000000000000200100071100040000000208024190000275024911000000300000700041811000000000000000000001010073002200201200000135098700401022403190301800241263061891700000325066653500012373385459462313017582149114372192950729815390
.......................................................................................................TATAACTTCATTGGAA-GCTAAG..........................................................2213390.00339000000000000100000000000420000000000000000201000000100000000000000000000000000000000000000000006004000000002010080000000000100000000000000000000000000080000000000000000101000101000200000002692163000022002720000000000004900011000000100000000000000000000090040010000000004024110000036000000040020000112331000000360364600020001776100000305026000000100120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................2112894.002894000000000000000000000006000000000000000000000000000000000000000000000000000000000000000000000100200000000000001000000000000100000000000000000000000000000000000000000010000020000000000000241153000021016900000000000000000000000000000000000000000000001000002100000000201260000000100000001000110100140100000120283000000032091200000210409000000155050
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................241598.00598000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000604100000052000000000000000001000000000000000000000000000000000000100000000060000000000000000000000000000000003010400000004390000100010300110025000
.......................................................................................................TATAACTTCATTGGAA-GCTA............................................................201383.00383000000000000000000000008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000020000010000000000000130800001409000000000000000000000000000000000100000000000010010000000000000071000000010000000200001000050100000405300000001890000000000100100040010
......................................................................................................ATATAACTTCATTGGAA-GCTAAG..........................................................231347.0034700000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000000000200000000000000000000000000000000000080800001401100000000000001000010000000000000000000000000002000000000000000002800000000000000000000000404000000200330002000241000000100000000009000
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................241316.00316000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000204000000300000000000000000000000000000000000000000000001000000000000000002000000000000000000000000010000000001000000002870000003000000000012000
......................................................................................................ATATAACTTCATTGGAA-GCTA............................................................211281.00281000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000100000000000000000000908000010010000000000000000000000000000000000000000000000000010000000000000041000000110000000000000010020000000103200000011630000000000100100022000
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................221270.00270000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000007000000400000000000000000000000000000000000000000000000000000000000000008000000000000000000000000010000000000100000002330000002000100000011000
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................191267.002670000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000001030000101000000000000000000100000000000000000000000000000000000000000000025000000000000000000000000010100000201100000111831010102001200000035000
......................................................................................................ATATAACTTCATTGGAA-GCT.............................................................201158.00158000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000701000000200000000000000000000000000000000000000000000000000000000000000003600000000000000010000000000000000000310000000810010000000000000023000
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................201145.001450000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001100000100000000000000011000030100000000000000000000000000000000000000000000000000000000000000000900000000000000000000000001000000000110000001920000001001000000011000
.......................................................................................................TATAACTTCATTGGAA-GCTAA...........................................................211134.001340000000000000000000000040000000000000000000000000000000000000000000000000000000000000000000003002000000000000000000000000000000000000000000000000000000000000000000000100000100000000000009060000130170000000000000000000000000000000000000000000000000000000000000000130000000000000001000000000100000001002000000054000000000000000006000
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................241118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000800000010000000000000000000000000000000000000000000000000000000000000000010000000000000001000000000000000002011000001086000000100030000003000
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................221118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000020110000001104000000001000000005000
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................231112.0011200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000030200000000811000002000000000014000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGT.........................................................231105.0010500000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000060100001010000000000000000001000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000077000000000000000005000
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................21198.00980000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000004000000000000000000000000000000000000000000000000000000000000001010000000000000000000000000000000001010000000082000000000010000003000
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................23175.007500000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000011000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000001010000000051000000100000000007000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGA.........................................................23172.007200000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000010010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040200001012000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000001002000000044000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCT.............................................................19165.006500000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000002000000000000000000000000000000000000000000000000000000000000100003050000000000000000000000000000000000000000000000000000000000000000360000000000000000000000000000000000021000000000000000000000000013000
......................................GTCACCGGTCATGTCCTCC...............................................................................................................................19163.006300000000000000000000000400000000000000000000000000000000000000000000000000000000000010000001010010011000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000010000000000000000000000000000000000000000000000000000000000000000700000000000000000000000000000000000000000000180000000000000000025010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................24162.00620000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000000010000000056000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAG.............................................................................................................18140.00400000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000503000000000000000000000000000000000000000000000000000000000000000050000000000000000000000000010000000021000000010000000000010000008000
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................23138.00380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000030000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000031000000000000000001000
......................................................................................................ATATAACTTCATTGGAA-GCTAA...........................................................22131.00310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002100000204000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000019000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................23126.0026000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000700000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000006000000000000000009000
.....................................TGTCACCGGTCATGTCCTCC...............................................................................................................................20125.0025000000000000000000000004000000000000000000000000000000000000000000000000000000000001000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000008000000000000000007000
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................22121.00210000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000018000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAA..........................................................22114.0014000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000010300000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000002000000003000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTATC......................................................................................................25113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGC.........................................................23113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000010000000000000000000000
.............................................................GAGCAAAGAAGTAGTATTT........................................................................................................19112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000103000010300000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000003000000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................21112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000100000009000000000000000000000
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................18110.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000102000010100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000003000
.......................................TCACCGGTCATGTCCTCC...............................................................................................................................1819.009000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000100000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000000000000000000000000000000000000000000001000
............................................................CGAGCAAAGAAGTAGTATTT........................................................................................................2019.009000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000008000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATG.........................................................................................................2218.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000104000000001000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGA.........................................................2418.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006200000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2018.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1917.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2017.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTGTG.....................................................................................................2617.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTAC..........................................................................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000004000000000000000001000
........................................................................................................ATAACTTCATTGGAA-GCTAAG..........................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000005000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGT.........................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
..............................................................AGCAAAGAAGTAGTATTT........................................................................................................1815.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAT...........................................................2115.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTAA......................................................................................................2515.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000001000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGC............................................................................................................1914.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000100000000002000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAT...........................................................2214.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
droSim2
TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM023

Head		M024

Male-body		M025

Embryo		M053

Female-body		O001

Testis		O002

Head		SRR553485

Ovary		SRR553486

Ovary		SRR553487

Ovary		SRR553488

Ovary		SRR618934

Ovary		V044

Embryo		SRR902008

Ovary		SRR902009

Testis		SRR1275487

Male larvae		SRR1275485

Male prepupae		SRR1275483

Male prepupae
.........................................................AAGCGAGCAAAGAAGTGGTATT.........................................................................................................2211194.001194030004811024112300641001
.........................................................AAGCGAGCAAAGAAGTGGTAT..........................................................................................................211871.00871020017930000200685000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221431.004310110235584436140024000
.........................................................AAGCGAGCAAAGAAGTGGTA...........................................................................................................201270.0027000002253000020040000
.........................................................AAGCGAGCAAAGAAGTGGTATTT........................................................................................................231225.0022502005210000200168000
..........................................................AGCGAGCAAAGAAGTGGTATTT........................................................................................................221139.0013903001300000000123000
.......................................................................................................TATAACTTCTTTGAAA-GC..............................................................181136.001360100133200000000000
.........................................................AAGCGAGCAAAGAAGTGG.............................................................................................................181118.001180000116100001000000
.......................................................................................................TATAACTTCTTTGAAA-GCTA............................................................20190.0090000088100000001000
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................21183.0083000082100000000000
..........................................................AGCGAGCAAAGAAGTGGTATT.........................................................................................................21176.0076010080000000067000
.......................................................................................................TATAACTTCTTTGAAA-GCT.............................................................19163.0063030058100001000000
......................................................................................................ATATAACTTCTTTGAAA-GCTAG...........................................................22157.00570000231000000033000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................23147.0047000047000000000000
.........................................................AAGCGAGCAAAGAAGTGGT............................................................................................................19139.0039000038000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTT.......................................................................................................24126.0026000000000000026000
..........................................................AGCGAGCAAAGAAGTGGTAT..........................................................................................................20116.0016000030000000013000
.........................................................AAGCGAGCAAAGAAGTGGTATTA........................................................................................................23116.0016000000000000016000
..........................................................AGCGAGCAAAGAAGTGGTATTTT.......................................................................................................23115.0015000000000000015000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................23112.001200009000010002000
..........................................................AGCGAGCAAAGAAGTGGTA...........................................................................................................19110.001000006000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2117.00701005000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGG..........................................................2117.00700007000000000000
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1816.00613002000000000000
......................................................................................................ATATAACTTCTTTGAAA-G...............................................................1816.00600006000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGG..........................................................1814.00400000000004000000
.........................................................AAGCGAGCAAAGAAGTGGTAA..........................................................................................................2114.00400000000000004000
.........................................................AAGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2414.00400000000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCT.............................................................2014.00412001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAA.......................................................................................................2413.00300000000000003000
......................................................................................................ATATAACTTCTTTGAAA-GC..............................................................1913.00300003000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2513.00300000000000003000
.........................................................AAGCGAGCAAAGAAGTGGTATA.........................................................................................................2213.00300000000000003000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGA.........................................................2312.00200000000001001000
..........................................................AGCGAGCAAAGAAGTGGTATTTG.......................................................................................................2312.00200000000000002000
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1912.00201001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTT...........................................................................................................2012.00200000000000002000
........................................................................................................ATAACTTCTTTGAAA-GCTAG...........................................................2012.00200002000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTA........................................................................................................2212.00200000000000002000
..........................................................AGCGAGCAAAGAAGTGGTT...........................................................................................................1911.00100000000000001000
.....................................................................................................AATATAACTTCTTTGAAA-GCTAG...........................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2411.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTAAA.........................................................................................................2211.00100000000000001000
...........................................................GCGAGCAAAGAAGTGGTATTT........................................................................................................2111.00100000000000001000
...............................................................GCAAAGAAGTGGTATT.........................................................................................................1611.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATCA........................................................................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2411.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGT............................................................................................................1811.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGC......................................................................................................2511.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTAA..........................................................................................................2011.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGGT.........................................................2211.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATAA........................................................................................................2311.00100000000000001000
............................................................CGAGCAAAGAAGTGGTAT..........................................................................................................1811.00100001000000000000
...................................................................................................CAAATATAACTTCTTTGAAA-GC..............................................................2211.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATAAA.......................................................................................................2411.00100000000000001000
.......................................TCACTGGTCGTGTCCTCCA..............................................................................................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAAA......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGT...............................................................................................................1611.00100000000001000000
............................................................CGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2311.00100001000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGGT.........................................................1911.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2611.00100001000000000000
............................................................CGAGCAAAGAAGTGGTATTTGCGT....................................................................................................2411.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATA.........................................................................................................2111.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTA............................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTA..............................................................................................................1711.00100000000000001000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGA..........................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGC.............................................................................................................1820.50100000000001000000
.........................................................AAGCGAGCAAAGAAG................................................................................................................1520.50100000000001000000
.............................................................GAGCAAAGAAGTGGT............................................................................................................1520.50100000000001000000
...........................................................................................................ACTTCTTTGAAA-GCTAGAA.........................................................1950.20100000000000001000
droSec2
TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM054

Female-body		V113

Male-body		V114

Embryo		V115

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2211247.001247211901144
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231186.00186118113
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221105.00105486105
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21135.003513301
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................22118.001801710
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................2116.0060600
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2015.0050500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2113.0031101
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1812.0020011
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................2312.0020110
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1912.0020200
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2212.0020200
........................................................CAAGCGAGCAAAGAAGTAGTAT..........................................................................................................2211.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................2311.0010100
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1911.0010010
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010001
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0011000
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2411.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2111.0010010
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGA..........................................................2211.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGC.........................................................2311.0011000
..........................................................AGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2311.0010100
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010100
droEre2
CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM055

Female-body		M057

Embryo		V060

Head		V040

Embryo		V107

Male-body		V108

Head		GSM1528801

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2213284.003284507029533190
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................2311614.0016142011014581430
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................221178.001786050155120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21185.008500008410
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24143.004300004120
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................20110.001000001000
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2317.0070000700
......................................................................................................ATATAACTTTTTTGGAA-GCTACG..........................................................2316.0060000420
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................2415.0050000500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2115.0052000300
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1914.0040000400
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2413.0030000300
......................................................................................................ATATAACTTTTTTGGAA-GCTACGT.........................................................2412.0020000200
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2012.0020000200
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1912.0020000110
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2212.0020000200
........................................................CAAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2511.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................2311.0010000100
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2111.0010000100
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2211.0010000100
.........................................................................................................TAACTTTTTTGGAA-GCTACG..........................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.0010000010
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010000100
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010000010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................2411.0010000010
..........................................................AGCGAGCAAAGAAGTAGTAT..........................................................................................................2011.0010000100
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTAA.......................................................................................................2411.0010000100
........................................................................................................ATAACTTTTTTGGAA-GCTACG..........................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2211.0010000100
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................2211.0010000100
droWil2
T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------SizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
.........................................................AAGCGAGCAAGAAAGTGGTATT.........................................................................................................221662.006621164974
.........................................................AAGCGAGCAAGAAAGTGGTATTT........................................................................................................231150.001500114432
.........................................................AAGCGAGCAAGAAAGTGGTAT..........................................................................................................21151.0051005001
.........................................................AAGCGAGCAAGAAAGTGGTATTTC.......................................................................................................2415.00500500
.........................................................AAGCGAGCAAGAAAGTGGTA...........................................................................................................2015.00500500
.......................................................................................................TATAACTTTTTTGGAA-GCTACA..........................................................2215.00500410
.........................................................AAGCGAGCAAGAAAGTGGTATTTCC......................................................................................................2512.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATC.........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTA........................................................................................................2312.00200200
..........................................................AGCGAGCAAGAAAGTGGTATTT........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTC........................................................................................................2311.00100100
.........................................................AAGCGAGCAAGAAAGTGGTATTTT.......................................................................................................2411.00100010
.........................................................AAGCGAGCAAGAAAGTGGTATTAA.......................................................................................................2411.00100100
..........................................................AGCGAGCAAGAAAGTGGTATTTA.......................................................................................................2311.00100100
droVir3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------SizeHit CountTotal NormTotalM027

Male-body		M028

Head		M047

Female-body		M061

Embryo		SRR060654

Ovary		SRR060655

Testis		SRR060656

Ovary		SRR060657

Testis		SRR060658

Ovary		SRR060659

Testis		SRR060660

Ovary		SRR060661

Embryo		SRR060662

Embryo		SRR060663

Embryo		SRR060664

Male-body		SRR060665

Female-body		SRR060666

Male-body		SRR060667

Female-body		SRR060668

Male-body		SRR060669

Female-body		SRR060670

Testis		SRR060671

Male-body		SRR060672

Female-body		SRR060673

Ovary		SRR060674

Ovary		SRR060675

Ovary		SRR060676

Ovary		SRR060677

Ovary		SRR060678

Testis		SRR060679

Testis		SRR060680

Testis		SRR060681

Testis		SRR060682

Embryo		SRR060683

Testis		SRR060684

Embryo		SRR060685

Embryo		SRR060686

Embryo		SRR060687

Embryo		SRR060688

Ovary		SRR060689

Testis		SRR1106712

embryo_0-2h		SRR1106713

embryo_0-2h		SRR1106714

embryo_2-4h		SRR1106715

embryo_4-6h		SRR1106716

embryo_4-6h		SRR1106717

embryo_6-8h		SRR1106718

embryo_6-8h		SRR1106719

embryo_8-10h		SRR1106720

embryo_8-10h		SRR1106721

embryo_10-12h		SRR1106722

embryo_10-12h		SRR1106723

embryo_12-14h		SRR1106724

embryo_12-14h		SRR1106725

embryo_14-16h		SRR1106726

embryo_14-16h		SRR1106727

larvae		SRR1106728

larvae		SRR1106729

mixed whole adult body		SRR1106730

embryo_16-30h		V047

Embryo		V053

Head		V116

Male-body		GSM1528803

follicle cells		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
.........................................................GAGCGAGCAGAGAAGTATTAT..........................................................................................................21130295.0030295601009735223105332591201120003010696187699636161201793686116246132765100000000000000000101034000012010100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATG..........................................................2319970.0099705013053007570117000010002051031421122317178665728040404001429350000000000000000020002000221001000000010
.......................................................................................................TAAGACTTTTTTGGTTCGCTAT...........................................................2215421.00542100200147271054000000002019400021111515106146713820140000003610000000000000000000001800000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATC.........................................................................................................2214748.00474820120114821321900000000003992010000902863408118002620000018100000000000000000000016200000000000000000
.........................................................GAGCGAGCAGAGAAGTATTC...........................................................................................................2014144.0041441019041892073533000000010237002011065987832110230169000002050000000000000000000006300000010111200000
.........................................................GAGCGAGCAGAGAAGTATTA...........................................................................................................2013985.003985101046506121830000000000167001111377394331811280134000011210000000000000000000007600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAT...........................................................2313562.003562001021002300380000000000115002022010037672788690115001042170000000000000000000001000000020002000000
......................................................................................................ATAAGACTTTTTTGGTTCGCT.............................................................2113060.0030607030330908118510000000101240041213566552183644014511000324000000000000000000000900010012012200000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATG..........................................................2412923.0029231502028941804000000001001070000421885519224687078000032240000000000000000000001301300001000000000
.........................................................GAGCGAGCAGAGAAGTATT............................................................................................................1912778.00277800202691987841720001000006800421433283698629705000000400000000000000000000013600000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTT........................................................................................................2311645.00164501000430193112610000001116301000023913188431803700000390000000000000000000002300000010000000000
.........................................................GAGCGAGCAGAGAAGTATTATCC........................................................................................................2311201.001201106016700037000000000015700001001281659934109500000620000000000000000000004100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTA............................................................2111039.001039003005709080000000000580010010229192972550390000087000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATT.........................................................................................................2211011.00101100102140185211300001200003600200102221584118001300000190000000000000000000011800000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCT.............................................................201959.00959100001170260210000000000540020010152183691860520000091000000000000000000000100000001110000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTA............................................................221604.00604001002408013000000000090010000164120351200260000069000000000000000000000700000030103000000
.........................................................GAGCGAGCAGAGAAGTATTATTC........................................................................................................231540.005401000027011340000000000290000000128873813201400000270000000000000000010001400000050100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGT.........................................................241522.00522000012622903000000000002800000028574221180280000075000000000000000000000100001000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATC..........................................................231417.0041710001510040000000000281000000836447980210000060000000000000000001000100000000100000000
.........................................................GAGCGAGCAGAGAAGTAT.............................................................................................................181322.0032200001100118548100000000040021210385192802000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAA..........................................................................................................211295.0029500000201016000000000012000011147662910017121004000000000000000000000200001000000000000
.........................................................GAGCGAGCAGAGAAGTATTCC..........................................................................................................211241.002410000026001140000000000190000000244617600150000013000000000000000000000600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTC............................................................221222.00222800002400020000000000140000000262523480140000035000000000000000000000300000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGT.........................................................251217.0021700000120110700000000001000000006636941040000021000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTT...........................................................................................................201203.00203001001146036100000000040000001234293105000000000000000000000000000200000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTT............................................................221188.001880000019100100000000004000000038311352060000021000000000000000001000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATC..........................................................241151.00151000004000000000000007000000047231045040000010000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTTC.......................................................................................................241144.001440000030001000000000101200000003031933010000002000000000000000000000300000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCC.........................................................241130.0013000200700000000000000600000001422224107000008000000000000000000000001000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTC............................................................21199.009900000800000000000000100000100627915090000014000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGC..............................................................20199.00990010070311000000000040000100202981803000003000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGA.........................................................24182.00820000020001000000000010000000251252702000006000000000000000000000000010000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATT..........................................................23171.00710000010003000000000010000000014931708000005000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATG..........................................................18159.005900000104030000000000600000009371205000008000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATC............................................................................................................19151.0051000002010800000000005000000051021203000001000000000000000000000100000000100000000
.........................................................GAGCGAGCAGAGAAGTATTCA..........................................................................................................21151.005100200100060001000000300000115611700000004000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATCC...........................................................................................................20149.004900000100180000000000400000007931105000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTT............................................................21139.00390000060000000000000010000000835901000006000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTC........................................................25136.00360000010001000000000020000000891206000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTC.........................................................24136.003600000000010000000000200000009631500000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTAT..........................................................................................................20132.00320000020304000000000020000000440801000003000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGC..............................................................19132.003200000002000000000000100000001250901000000000000000000000000000000000002000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATT..........................................................24131.00310000020000000000000030000000862505000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCC.........................................................25130.0030000000000000000000000000000016101000000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCG...............................................................19128.002800000003010000000000000000006313010000010000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAC..........................................................................................................21128.00280000000403000000000060000000212601000003000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATC.........................................................................................................18127.00270000020001000000000080000000230302000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATA..........................................................23127.00270000000001000000000010000000545800000003000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTAT..........................................................................................................18123.002300100004000000010000100000001112200000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCC.......................................................26122.00220000000000000000000020000000541701000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATTC.........................................................25122.002200000100000000000000000000001050500000001000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTATG..........................................................22121.00210000000000000000000000000000643300000005000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATA.........................................................................................................22121.00210000000000000000000010000000930600000001000000000000000000000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCC.............................................................21121.00212000000000000000000010000000540801000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAAA.........................................................................................................22120.00200000000000012000000000000000223601000000000000000000000000000000002000000000010
.........................................................GAGCGAGCAGAGAAGTATTATCCC.......................................................................................................24118.00180000010000000000000050000000220601000001000000000000000000000000000000000000000
...........................................................................................................ACTTTTTTGGTTCGCTATG..........................................................19118.00180000010000000000000030000100162200000002000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTAT..........................................................................................................19117.00170000000302000000000000000000351300000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCT.........................................................24117.00170000010000000000000000000000224700000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAG..........................................................................................................21117.00170000020401000000000010010000102302000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTTC..........................................................................................................21117.00170000000004000000000000000000251301000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGC.........................................................24116.00160000000000000000000000000000241800000001000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTTC...........................................................23115.00150000040000000000000010000000310301000002000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCG...............................................................18115.00150000020000000000000000000000350201000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTC........................................................26115.00150000010000000000000010000000252400000000000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTAT...........................................................21115.00150010000000000000000000000000452300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTCC.......................................................................................................24113.00130000010000000000000010000000211601000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTCCC.........................................................................................................22112.00120000000000000000000000000000051300000002000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCC.............................................................20112.00121010000000000000000000000000131300000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCT.........................................................25111.00110000000000000000000000000000231500000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATCA........................................................................................................2319.0090000000000000000000010000000212300000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATA..........................................................2419.0090000000000000000000000000000300411000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAA...........................................................2219.0090000000000000000000000000000320301000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCC.......................................................2718.0080000000000000000000000000000040200000001000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAC...........................................................2218.0080001000000000000000020000000010100000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGA.........................................................2518.0080000000000000000000000010000111300000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTG...........................................................................................................2018.0080000000001000000000020000000100300000001000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTATC.........................................................................................................1917.0070000000000000000000010000000120003000000000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTC...........................................................................................................1817.0070000000000000000000000000000041101000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTT.........................................................2417.0070000000301000000000020000000000001000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGC.........................................................2517.0070000000000000000000000000000121200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTTC...........................................................2217.0070000000000000000000000000000101201000002000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATCC........................................................................................................1917.0070000010001000000000010000000001101000001000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATTT........................................................................................................1916.0060000000300000000000000000000010100000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTT........................................................2516.0060000001000000000000000000000310100000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAA........................................................2516.0060000000001000000000000000000000000000000000000000000000000000001013000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGG.........................................................2415.0050000000000000000000000000000200300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACC.........................................................................................................2215.0050000010000000000000020000000010000000001000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTATC.........................................................................................................2015.0050000000000000000000010000000200200000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTA...........................................................................................................1915.0050020000000000000000000000000101100000000000000000000000000000000000000000000000
...............................................................................TGCGTGAATC----TGATATCAAA.................................................................................2014.0040000000000000000000020000000010000000000000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATGT.........................................................1914.0040000000100000000000010000000000101000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAA...........................................................2314.0040000000000000000000000000000300100000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTATC.........................................................................................................2114.0040000000000000000000010000000100200000000000000000000000000000000000000000000000
............................................................................................................CTTTTTTGGTTCGCTATC..........................................................1814.0040000010000000000000010000000200000000000000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATT.........................................................................................................1814.0040000010100000000000000000000100100000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCT.......................................................2714.0040000000000000000000000000000001200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAAA.......................................................2614.0040000000000000000000000000000001000000000000000000000000000000000012000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCCC........................................................2514.0040000000000000000000000000000100201000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCT.......................................................2613.0030000000000000000000000000000100000000002000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACCC........................................................................................................2313.0030000000000000000000010000000000200000000000000000000000000000000000000000000000
droMoj3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------SizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
.........................................................GAGCGAGCAGAGAAGTATT-A..........................................................................................................201112.0011200120109
.........................................................GAGCGAGCAGAGAAGTATT-...........................................................................................................19136.00360001035
.........................................................GAGCGAGCAGAGAAGTATT-T..........................................................................................................20113.00130000013
.........................................................GAGCGAGCAGAGAAGTATT-AA.........................................................................................................21112.00120010011
.........................................................GAGCGAGCAGAGAAGTATT-C..........................................................................................................2018.008100007
.........................................................GAGCGAGCAGAGAAGTATT-TT.........................................................................................................2112.002000002
.........................................................GAGCGAGCAGAGAAGTATC-...........................................................................................................1911.001000001
.........................................................GAGCGAGCAGAGAAGTATT-TC.........................................................................................................2111.001000001

Generated: 10/20/2015 at 07:49 PM

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droAna3 scaffold_13417:2478447-2478612 - dan_39 confident CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCT
droBip1 scf7180000395874:49491-49664 - CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-
droKik1 scf7180000302517:1176343-1176465 + GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------
droFic1 scf7180000454073:1724075-1724180 + TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------
droEle1 scf7180000490751:1106989-1107101 + AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------
droRho1 scf7180000761121:198597-198702 - CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------
droBia1 scf7180000302069:1157334-1157434 - TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------
droTak1 scf7180000415169:850576-850717 - GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------
droEug1 scf7180000409109:6720-6831 - AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------
dm3 chrX:19445685-19445807 + dme-mir-974 Known_mirbase GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------
droSim2 x:18335048-18335156 + dsi_68 confident TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droSec2 scaffold_8:1728111-1728208 + dse_40 confident TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droEre2 scaffold_4690:9682442-9682548 + der_30 confident CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------
droWil2 scf2_1100000004909:7946617-7946740 + dwi_59 confident T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------
droVir3 scaffold_13042:917559-917647 - dvi-mir-974-2 Known_mirbase --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------
droMoj3 scaffold_6328:2908517-2908601 - dmo_160 candidate-rescued --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCTSizeHit CountTotal NormTotalM044

Female-body		M058

Embryo		V039

Embryo		V055

Head		V105

Male-body		V106

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................221355.003554101929437
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231114.0011410059117
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................22180.00801005740
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21154.00540002511
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24111.0011000074
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2219.009000054
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2318.008000170
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2114.004000040
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2013.003000120
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2212.002000020
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2112.002000020
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2411.001000001
......................................................................................................ATATAACTTTTTTGGAA-GCTA............................................................2111.001000010
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.001000010
.......................................................................................................TATAACTTTTTTGGAA-GCTACGA.........................................................2311.001000010
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2011.001000010
.........................................................AAGCGAGCAAAGAAGTAGTAG..........................................................................................................2111.001000001
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2011.001000010
...........................................................GCGAGCAAAGAAGTAGTATTG........................................................................................................2111.001000010
droBip1
CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-SizeHit CountTotal NormTotal
No Reads
droKik1
GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------SizeHit CountTotal NormTotal
No Reads
droEug1
AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dm3
GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalGSM154618

Ovary		GSM154620

Ovary		GSM154621

Ovary		GSM154622

Ovary		GSM180328

Head		GSM180329

Mixed-body		GSM180330

Embryo		GSM180331

Embryo		GSM180332

Embryo		GSM180333

Embryo		GSM180334

Larvae		GSM180335

Disc		GSM180336

Pupae		GSM180337

S2		GSM239041

Head		GSM239050

Head		GSM239051

S2		GSM239052

S2		GSM246084

Head		GSM266765

S2		GSM280082

Ovary		GSM280083

Ovary		GSM280084

Ovary		GSM280085

Testis		GSM280086

Ovary		GSM280087

S2-NP		GSM280088

S2-NP		GSM312995

Head		GSM313160

Head		GSM313161

Head		GSM313162

Head		GSM313163

Head		GSM313164

Head		GSM313165

Head		GSM343287

Embryo		GSM379050

Ovary		GSM379051

Ovary		GSM379052

Ovary		GSM379053

Ovary		GSM379054

Ovary		GSM379055

Ovary		GSM379056

Ovary		GSM379057

Ovary		GSM379058

Ovary		GSM379059

Ovary		GSM379060

Ovary		GSM379061

Ovary		GSM379062

Ovary		GSM379063

Ovary		GSM379064

Ovary		GSM379065

Ovary		GSM379066

Ovary		GSM379067

Ovary		GSM424739

S2		GSM424740

S2		GSM424741

S2		GSM467729

Female-body		GSM467730

Female-body		GSM467731

Female-body		M002

CS		M003

Male-body		M004

Male-body		M005

ML-DmD32		M006

ML-DmD32		M029

OSC		M030

OSC		M031

OSC		M032

S2-R+		M033

S2-R+		M034

S2-R+		M035

S2-R+		M036

S2-R+		M037

S2-R+		M038

S2-R+		M039

S2-R+		M048

S2-R+		OSS2

OSS		OSS6

OSS		OSS7

OSS		OSS8

OSS		S1

Head		S10

Embryo		S11

Embryo		S12

Embryo		S13

Embryo		S14

Embryo		S15

S2-GMR		S16

Kc		S17

Larvae		S18

Larvae		S19

Pupae		S2

Head		S20

Pupae		S21

Disc		S22

Head		S23

Female-body		S24

Male-body		S25

Larvae		S26

Larvae		S27

Pupae		S28

Pupae		S29

Head		S3

Male-body		S30

S2-GMR		S31

S2		S32

S2		S33

Kc		S34

Kc		S35

Kc		S4

Female-body		S5

Disc		S6

Embryo		S7

Embryo		S8

S2		S9

Embryo		SRR001337

Head		SRR001338

Head		SRR001339

Head		SRR001340

Head		SRR001341

Head		SRR001342

Head		SRR001343

Head		SRR001344

Head		SRR001345

Head		SRR001346

Head		SRR001347

Head		SRR001348

Head		SRR001349

Head		SRR001664

Head		SRR010951

Ovary		SRR010952

Ovary		SRR010953

Ovary		SRR010954

Ovary		SRR010955

Ovary		SRR010956

Ovary		SRR010957

Ovary		SRR010958

Ovary		SRR010959

Ovary		SRR010960

Ovary		SRR014268

Embryo		SRR014269

Embryo		SRR014270

Embryo		SRR014271

Embryo		SRR014272

Embryo		SRR014273

Ovary		SRR014274

Ovary		SRR014275

Ovary		SRR014276

Ovary		SRR014277

Ovary		SRR014278

Ovary		SRR014279

Ovary		SRR014280

Ovary		SRR014281

Ovary		SRR014282

Ovary		SRR023197

S2		SRR023399

S2		SRR023400

S2		SRR023402

S2		SRR023407

S2		SRR029028

S2		SRR029029

S2		SRR029030

S2		SRR029031

S2		SRR029032

S2		SRR029033

S2		SRR029608

Head		SRR029633

Head		SRR030145

gb3		SRR031692

Head		SRR031693

Head		SRR031694

Head		SRR031696

Head		SRR031697

Head		SRR031698

Head		SRR031699

Head		SRR031700

Head		SRR031701

Head		SRR031702

Head		SRR031703

Head		SRR031704

Head		SRR032092

S2		SRR032093

S2		SRR032094

S2		SRR032095

S2-NP		SRR032096

S2-NP		SRR032152

Head		SRR060643

Testis		SRR060644

Ovary		SRR060645

Testis		SRR060646

Ovary		SRR060647

Ovary		SRR060648

Ovary		SRR060649

Ovary		SRR060650

Testis		SRR060651

Ovary		SRR060652

Testis		SRR060653

Ovary		SRR065151

Ovary		SRR065152

Ovary		SRR065153

Ovary		SRR065154

Ovary		SRR065155

Ovary		SRR065800

Ovary		SRR065801

Ovary		SRR065802

Ovary		SRR065803

Ovary		SRR065804

Ovary		SRR065805

Ovary		SRR065806

Ovary		SRR065807

Ovary		SRR097865

S2-NP		SRR097866

S2-NP		SRR097867

S2-NP		SRR298536

Ovary		SRR298537

Ovary		SRR298711

Ovary		SRR298712

Ovary		SRR317110

Ovary		SRR317111

Ovary		SRR317112

Ovary		SRR317113

Ovary		SRR317114

Ovary		SRR317115

Ovary		SRR317116

Ovary		SRR317117

Ovary		SRR341115

S2		SRR341116

S2		SRR341117

S2		SRR341118

S2		SRR351332

Mixed-body		SRR351333

Mixed-body		T004

OSC		T005

CME-L1		V001

Embryo		V002

Embryo		V003

S2		V006

Female-body		V007

Head		V008

S2		V009

CME-L1		V010

ML-DmD20-C5		V011

Sg4		V012

Male-body		V013

Head		V014

DTT		V015

DreRFHV		V018

Kc167		V019

GM2		V020

S2-R+		V021

ML-DmD21		V022

ML-DmD32		V023

Head		V024

Kc167		V025

S2-R+		V026

1182-2H		V027

ML-DmD21		V028

CME-W1-Cl.8+		V029

ML-DmD9		V030

ML-DmD8		V031

GM2		V032

S1		V033

CME-W1-Cl.8+		V034

ML-DmD16-C3		V035

ML-DmD32		V036

ML-DmD20-C5		V037

S2		V038

S2		V063

Ovary		V0632

Ovary		V064

Ovary		V0642

Ovary		V065

Ovary		V0652

Ovary		V066

Ovary		V0662

Ovary		V067

S2-NP		V073

mbn2		V074

S3		V075

ML-DmBG1-C1		V076

ML-DmBG3-C2		V077

Head		V078

Head		V079

Head		V080

Head		V081

Embryo		V082

Embryo		V083

Male-body		V084

Female-body		V085

CME-W2		V086

Female-body		V088

Ovary		V0882

Ovary		V089

Ovary		V0892

Ovary		V090

Male-body		V091

fGS/OSS		V092

Male-body		V093

Male-body		V094

S2-R+		V095

S2-R+		V096

Ovary		V097

Ovary		V098

Ovary		V125

ML-DmD9		V126

CME-L1		V127

G2		V128

S3		V129

ML-DmBG1-C1		V130

ML-DmBG3-C2		V131

ML-DmD16-C3		V132

ML-DmD32		V133

Sg4		V134

ML-DmD8		V135

CME-W2		V136

Male-body		V137

Head		V138

Male-body		V139

Female-body		V140

Female-body		V141

Female-body		V142

Female-body		V144

OSC		V145

S2		V146

S1		V147

1182-2H		V148

mbn2		GSM1528798

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231124226.0012422600000000000200000000000000000000000000002000100000000000000000000000000000000001000010002010023007001002001000011000300001000100000000000000000000110011620000000000000003010008010004000000291603919000023904883100000010000071007240100000001000000000000011016400161010210100024701253102100332124612041103022310810237090002039319496830211056261063026224037155201435361112731226492400
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................22198506.00985060000000000020000000000011000000000000000010001000000000000000000000000000000000000007000100200700400233000000005000000002010200000000000000000000000003000000000000000200100071100040000000208024190000275024911000000300000700041811000000000000000000001010073002200201200000135098700401022403190301800241263061891700000325066653500012373385459462313017582149114372192950729815390
.......................................................................................................TATAACTTCATTGGAA-GCTAAG..........................................................2213390.00339000000000000100000000000420000000000000000201000000100000000000000000000000000000000000000000006004000000002010080000000000100000000000000000000000000080000000000000000101000101000200000002692163000022002720000000000004900011000000100000000000000000000090040010000000004024110000036000000040020000112331000000360364600020001776100000305026000000100120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................2112894.002894000000000000000000000006000000000000000000000000000000000000000000000000000000000000000000000100200000000000001000000000000100000000000000000000000000000000000000000010000020000000000000241153000021016900000000000000000000000000000000000000000000001000002100000000201260000000100000001000110100140100000120283000000032091200000210409000000155050
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................241598.00598000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000604100000052000000000000000001000000000000000000000000000000000000100000000060000000000000000000000000000000003010400000004390000100010300110025000
.......................................................................................................TATAACTTCATTGGAA-GCTA............................................................201383.00383000000000000000000000008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000020000010000000000000130800001409000000000000000000000000000000000100000000000010010000000000000071000000010000000200001000050100000405300000001890000000000100100040010
......................................................................................................ATATAACTTCATTGGAA-GCTAAG..........................................................231347.0034700000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000000000200000000000000000000000000000000000080800001401100000000000001000010000000000000000000000000002000000000000000002800000000000000000000000404000000200330002000241000000100000000009000
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................241316.00316000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000204000000300000000000000000000000000000000000000000000001000000000000000002000000000000000000000000010000000001000000002870000003000000000012000
......................................................................................................ATATAACTTCATTGGAA-GCTA............................................................211281.00281000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000100000000000000000000908000010010000000000000000000000000000000000000000000000000010000000000000041000000110000000000000010020000000103200000011630000000000100100022000
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................221270.00270000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000007000000400000000000000000000000000000000000000000000000000000000000000008000000000000000000000000010000000000100000002330000002000100000011000
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................191267.002670000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000001030000101000000000000000000100000000000000000000000000000000000000000000025000000000000000000000000010100000201100000111831010102001200000035000
......................................................................................................ATATAACTTCATTGGAA-GCT.............................................................201158.00158000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000701000000200000000000000000000000000000000000000000000000000000000000000003600000000000000010000000000000000000310000000810010000000000000023000
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................201145.001450000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001100000100000000000000011000030100000000000000000000000000000000000000000000000000000000000000000900000000000000000000000001000000000110000001920000001001000000011000
.......................................................................................................TATAACTTCATTGGAA-GCTAA...........................................................211134.001340000000000000000000000040000000000000000000000000000000000000000000000000000000000000000000003002000000000000000000000000000000000000000000000000000000000000000000000100000100000000000009060000130170000000000000000000000000000000000000000000000000000000000000000130000000000000001000000000100000001002000000054000000000000000006000
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................241118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000800000010000000000000000000000000000000000000000000000000000000000000000010000000000000001000000000000000002011000001086000000100030000003000
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................221118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000020110000001104000000001000000005000
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................231112.0011200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000030200000000811000002000000000014000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGT.........................................................231105.0010500000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000060100001010000000000000000001000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000077000000000000000005000
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................21198.00980000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000004000000000000000000000000000000000000000000000000000000000000001010000000000000000000000000000000001010000000082000000000010000003000
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................23175.007500000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000011000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000001010000000051000000100000000007000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGA.........................................................23172.007200000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000010010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040200001012000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000001002000000044000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCT.............................................................19165.006500000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000002000000000000000000000000000000000000000000000000000000000000100003050000000000000000000000000000000000000000000000000000000000000000360000000000000000000000000000000000021000000000000000000000000013000
......................................GTCACCGGTCATGTCCTCC...............................................................................................................................19163.006300000000000000000000000400000000000000000000000000000000000000000000000000000000000010000001010010011000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000010000000000000000000000000000000000000000000000000000000000000000700000000000000000000000000000000000000000000180000000000000000025010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................24162.00620000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000000010000000056000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAG.............................................................................................................18140.00400000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000503000000000000000000000000000000000000000000000000000000000000000050000000000000000000000000010000000021000000010000000000010000008000
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................23138.00380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000030000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000031000000000000000001000
......................................................................................................ATATAACTTCATTGGAA-GCTAA...........................................................22131.00310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002100000204000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000019000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................23126.0026000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000700000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000006000000000000000009000
.....................................TGTCACCGGTCATGTCCTCC...............................................................................................................................20125.0025000000000000000000000004000000000000000000000000000000000000000000000000000000000001000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000008000000000000000007000
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................22121.00210000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000018000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAA..........................................................22114.0014000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000010300000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000002000000003000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTATC......................................................................................................25113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGC.........................................................23113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000010000000000000000000000
.............................................................GAGCAAAGAAGTAGTATTT........................................................................................................19112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000103000010300000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000003000000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................21112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000100000009000000000000000000000
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................18110.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000102000010100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000003000
.......................................TCACCGGTCATGTCCTCC...............................................................................................................................1819.009000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000100000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000000000000000000000000000000000000000000001000
............................................................CGAGCAAAGAAGTAGTATTT........................................................................................................2019.009000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000008000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATG.........................................................................................................2218.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000104000000001000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGA.........................................................2418.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006200000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2018.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1917.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2017.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTGTG.....................................................................................................2617.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTAC..........................................................................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000004000000000000000001000
........................................................................................................ATAACTTCATTGGAA-GCTAAG..........................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000005000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGT.........................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
..............................................................AGCAAAGAAGTAGTATTT........................................................................................................1815.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAT...........................................................2115.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTAA......................................................................................................2515.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000001000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGC............................................................................................................1914.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000100000000002000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAT...........................................................2214.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
droSim2
TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM023

Head		M024

Male-body		M025

Embryo		M053

Female-body		O001

Testis		O002

Head		SRR553485

Ovary		SRR553486

Ovary		SRR553487

Ovary		SRR553488

Ovary		SRR618934

Ovary		V044

Embryo		SRR902008

Ovary		SRR902009

Testis		SRR1275487

Male larvae		SRR1275485

Male prepupae		SRR1275483

Male prepupae
.........................................................AAGCGAGCAAAGAAGTGGTATT.........................................................................................................2211194.001194030004811024112300641001
.........................................................AAGCGAGCAAAGAAGTGGTAT..........................................................................................................211871.00871020017930000200685000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221431.004310110235584436140024000
.........................................................AAGCGAGCAAAGAAGTGGTA...........................................................................................................201270.0027000002253000020040000
.........................................................AAGCGAGCAAAGAAGTGGTATTT........................................................................................................231225.0022502005210000200168000
..........................................................AGCGAGCAAAGAAGTGGTATTT........................................................................................................221139.0013903001300000000123000
.......................................................................................................TATAACTTCTTTGAAA-GC..............................................................181136.001360100133200000000000
.........................................................AAGCGAGCAAAGAAGTGG.............................................................................................................181118.001180000116100001000000
.......................................................................................................TATAACTTCTTTGAAA-GCTA............................................................20190.0090000088100000001000
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................21183.0083000082100000000000
..........................................................AGCGAGCAAAGAAGTGGTATT.........................................................................................................21176.0076010080000000067000
.......................................................................................................TATAACTTCTTTGAAA-GCT.............................................................19163.0063030058100001000000
......................................................................................................ATATAACTTCTTTGAAA-GCTAG...........................................................22157.00570000231000000033000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................23147.0047000047000000000000
.........................................................AAGCGAGCAAAGAAGTGGT............................................................................................................19139.0039000038000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTT.......................................................................................................24126.0026000000000000026000
..........................................................AGCGAGCAAAGAAGTGGTAT..........................................................................................................20116.0016000030000000013000
.........................................................AAGCGAGCAAAGAAGTGGTATTA........................................................................................................23116.0016000000000000016000
..........................................................AGCGAGCAAAGAAGTGGTATTTT.......................................................................................................23115.0015000000000000015000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................23112.001200009000010002000
..........................................................AGCGAGCAAAGAAGTGGTA...........................................................................................................19110.001000006000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2117.00701005000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGG..........................................................2117.00700007000000000000
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1816.00613002000000000000
......................................................................................................ATATAACTTCTTTGAAA-G...............................................................1816.00600006000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGG..........................................................1814.00400000000004000000
.........................................................AAGCGAGCAAAGAAGTGGTAA..........................................................................................................2114.00400000000000004000
.........................................................AAGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2414.00400000000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCT.............................................................2014.00412001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAA.......................................................................................................2413.00300000000000003000
......................................................................................................ATATAACTTCTTTGAAA-GC..............................................................1913.00300003000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2513.00300000000000003000
.........................................................AAGCGAGCAAAGAAGTGGTATA.........................................................................................................2213.00300000000000003000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGA.........................................................2312.00200000000001001000
..........................................................AGCGAGCAAAGAAGTGGTATTTG.......................................................................................................2312.00200000000000002000
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1912.00201001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTT...........................................................................................................2012.00200000000000002000
........................................................................................................ATAACTTCTTTGAAA-GCTAG...........................................................2012.00200002000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTA........................................................................................................2212.00200000000000002000
..........................................................AGCGAGCAAAGAAGTGGTT...........................................................................................................1911.00100000000000001000
.....................................................................................................AATATAACTTCTTTGAAA-GCTAG...........................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2411.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTAAA.........................................................................................................2211.00100000000000001000
...........................................................GCGAGCAAAGAAGTGGTATTT........................................................................................................2111.00100000000000001000
...............................................................GCAAAGAAGTGGTATT.........................................................................................................1611.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATCA........................................................................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2411.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGT............................................................................................................1811.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGC......................................................................................................2511.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTAA..........................................................................................................2011.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGGT.........................................................2211.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATAA........................................................................................................2311.00100000000000001000
............................................................CGAGCAAAGAAGTGGTAT..........................................................................................................1811.00100001000000000000
...................................................................................................CAAATATAACTTCTTTGAAA-GC..............................................................2211.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATAAA.......................................................................................................2411.00100000000000001000
.......................................TCACTGGTCGTGTCCTCCA..............................................................................................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAAA......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGT...............................................................................................................1611.00100000000001000000
............................................................CGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2311.00100001000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGGT.........................................................1911.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2611.00100001000000000000
............................................................CGAGCAAAGAAGTGGTATTTGCGT....................................................................................................2411.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATA.........................................................................................................2111.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTA............................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTA..............................................................................................................1711.00100000000000001000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGA..........................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGC.............................................................................................................1820.50100000000001000000
.........................................................AAGCGAGCAAAGAAG................................................................................................................1520.50100000000001000000
.............................................................GAGCAAAGAAGTGGT............................................................................................................1520.50100000000001000000
...........................................................................................................ACTTCTTTGAAA-GCTAGAA.........................................................1950.20100000000000001000
droSec2
TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM054

Female-body		V113

Male-body		V114

Embryo		V115

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2211247.001247211901144
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231186.00186118113
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221105.00105486105
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21135.003513301
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................22118.001801710
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................2116.0060600
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2015.0050500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2113.0031101
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1812.0020011
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................2312.0020110
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1912.0020200
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2212.0020200
........................................................CAAGCGAGCAAAGAAGTAGTAT..........................................................................................................2211.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................2311.0010100
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1911.0010010
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010001
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0011000
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2411.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2111.0010010
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGA..........................................................2211.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGC.........................................................2311.0011000
..........................................................AGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2311.0010100
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010100
droEre2
CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM055

Female-body		M057

Embryo		V060

Head		V040

Embryo		V107

Male-body		V108

Head		GSM1528801

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2213284.003284507029533190
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................2311614.0016142011014581430
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................221178.001786050155120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21185.008500008410
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24143.004300004120
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................20110.001000001000
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2317.0070000700
......................................................................................................ATATAACTTTTTTGGAA-GCTACG..........................................................2316.0060000420
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................2415.0050000500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2115.0052000300
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1914.0040000400
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2413.0030000300
......................................................................................................ATATAACTTTTTTGGAA-GCTACGT.........................................................2412.0020000200
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2012.0020000200
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1912.0020000110
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2212.0020000200
........................................................CAAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2511.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................2311.0010000100
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2111.0010000100
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2211.0010000100
.........................................................................................................TAACTTTTTTGGAA-GCTACG..........................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.0010000010
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010000100
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010000010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................2411.0010000010
..........................................................AGCGAGCAAAGAAGTAGTAT..........................................................................................................2011.0010000100
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTAA.......................................................................................................2411.0010000100
........................................................................................................ATAACTTTTTTGGAA-GCTACG..........................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2211.0010000100
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................2211.0010000100
droWil2
T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------SizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
.........................................................AAGCGAGCAAGAAAGTGGTATT.........................................................................................................221662.006621164974
.........................................................AAGCGAGCAAGAAAGTGGTATTT........................................................................................................231150.001500114432
.........................................................AAGCGAGCAAGAAAGTGGTAT..........................................................................................................21151.0051005001
.........................................................AAGCGAGCAAGAAAGTGGTATTTC.......................................................................................................2415.00500500
.........................................................AAGCGAGCAAGAAAGTGGTA...........................................................................................................2015.00500500
.......................................................................................................TATAACTTTTTTGGAA-GCTACA..........................................................2215.00500410
.........................................................AAGCGAGCAAGAAAGTGGTATTTCC......................................................................................................2512.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATC.........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTA........................................................................................................2312.00200200
..........................................................AGCGAGCAAGAAAGTGGTATTT........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTC........................................................................................................2311.00100100
.........................................................AAGCGAGCAAGAAAGTGGTATTTT.......................................................................................................2411.00100010
.........................................................AAGCGAGCAAGAAAGTGGTATTAA.......................................................................................................2411.00100100
..........................................................AGCGAGCAAGAAAGTGGTATTTA.......................................................................................................2311.00100100
droVir3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------SizeHit CountTotal NormTotalM027

Male-body		M028

Head		M047

Female-body		M061

Embryo		SRR060654

Ovary		SRR060655

Testis		SRR060656

Ovary		SRR060657

Testis		SRR060658

Ovary		SRR060659

Testis		SRR060660

Ovary		SRR060661

Embryo		SRR060662

Embryo		SRR060663

Embryo		SRR060664

Male-body		SRR060665

Female-body		SRR060666

Male-body		SRR060667

Female-body		SRR060668

Male-body		SRR060669

Female-body		SRR060670

Testis		SRR060671

Male-body		SRR060672

Female-body		SRR060673

Ovary		SRR060674

Ovary		SRR060675

Ovary		SRR060676

Ovary		SRR060677

Ovary		SRR060678

Testis		SRR060679

Testis		SRR060680

Testis		SRR060681

Testis		SRR060682

Embryo		SRR060683

Testis		SRR060684

Embryo		SRR060685

Embryo		SRR060686

Embryo		SRR060687

Embryo		SRR060688

Ovary		SRR060689

Testis		SRR1106712

embryo_0-2h		SRR1106713

embryo_0-2h		SRR1106714

embryo_2-4h		SRR1106715

embryo_4-6h		SRR1106716

embryo_4-6h		SRR1106717

embryo_6-8h		SRR1106718

embryo_6-8h		SRR1106719

embryo_8-10h		SRR1106720

embryo_8-10h		SRR1106721

embryo_10-12h		SRR1106722

embryo_10-12h		SRR1106723

embryo_12-14h		SRR1106724

embryo_12-14h		SRR1106725

embryo_14-16h		SRR1106726

embryo_14-16h		SRR1106727

larvae		SRR1106728

larvae		SRR1106729

mixed whole adult body		SRR1106730

embryo_16-30h		V047

Embryo		V053

Head		V116

Male-body		GSM1528803

follicle cells		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
.........................................................GAGCGAGCAGAGAAGTATTAT..........................................................................................................21130295.0030295601009735223105332591201120003010696187699636161201793686116246132765100000000000000000101034000012010100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATG..........................................................2319970.0099705013053007570117000010002051031421122317178665728040404001429350000000000000000020002000221001000000010
.......................................................................................................TAAGACTTTTTTGGTTCGCTAT...........................................................2215421.00542100200147271054000000002019400021111515106146713820140000003610000000000000000000001800000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATC.........................................................................................................2214748.00474820120114821321900000000003992010000902863408118002620000018100000000000000000000016200000000000000000
.........................................................GAGCGAGCAGAGAAGTATTC...........................................................................................................2014144.0041441019041892073533000000010237002011065987832110230169000002050000000000000000000006300000010111200000
.........................................................GAGCGAGCAGAGAAGTATTA...........................................................................................................2013985.003985101046506121830000000000167001111377394331811280134000011210000000000000000000007600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAT...........................................................2313562.003562001021002300380000000000115002022010037672788690115001042170000000000000000000001000000020002000000
......................................................................................................ATAAGACTTTTTTGGTTCGCT.............................................................2113060.0030607030330908118510000000101240041213566552183644014511000324000000000000000000000900010012012200000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATG..........................................................2412923.0029231502028941804000000001001070000421885519224687078000032240000000000000000000001301300001000000000
.........................................................GAGCGAGCAGAGAAGTATT............................................................................................................1912778.00277800202691987841720001000006800421433283698629705000000400000000000000000000013600000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTT........................................................................................................2311645.00164501000430193112610000001116301000023913188431803700000390000000000000000000002300000010000000000
.........................................................GAGCGAGCAGAGAAGTATTATCC........................................................................................................2311201.001201106016700037000000000015700001001281659934109500000620000000000000000000004100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTA............................................................2111039.001039003005709080000000000580010010229192972550390000087000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATT.........................................................................................................2211011.00101100102140185211300001200003600200102221584118001300000190000000000000000000011800000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCT.............................................................201959.00959100001170260210000000000540020010152183691860520000091000000000000000000000100000001110000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTA............................................................221604.00604001002408013000000000090010000164120351200260000069000000000000000000000700000030103000000
.........................................................GAGCGAGCAGAGAAGTATTATTC........................................................................................................231540.005401000027011340000000000290000000128873813201400000270000000000000000010001400000050100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGT.........................................................241522.00522000012622903000000000002800000028574221180280000075000000000000000000000100001000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATC..........................................................231417.0041710001510040000000000281000000836447980210000060000000000000000001000100000000100000000
.........................................................GAGCGAGCAGAGAAGTAT.............................................................................................................181322.0032200001100118548100000000040021210385192802000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAA..........................................................................................................211295.0029500000201016000000000012000011147662910017121004000000000000000000000200001000000000000
.........................................................GAGCGAGCAGAGAAGTATTCC..........................................................................................................211241.002410000026001140000000000190000000244617600150000013000000000000000000000600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTC............................................................221222.00222800002400020000000000140000000262523480140000035000000000000000000000300000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGT.........................................................251217.0021700000120110700000000001000000006636941040000021000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTT...........................................................................................................201203.00203001001146036100000000040000001234293105000000000000000000000000000200000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTT............................................................221188.001880000019100100000000004000000038311352060000021000000000000000001000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATC..........................................................241151.00151000004000000000000007000000047231045040000010000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTTC.......................................................................................................241144.001440000030001000000000101200000003031933010000002000000000000000000000300000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCC.........................................................241130.0013000200700000000000000600000001422224107000008000000000000000000000001000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTC............................................................21199.009900000800000000000000100000100627915090000014000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGC..............................................................20199.00990010070311000000000040000100202981803000003000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGA.........................................................24182.00820000020001000000000010000000251252702000006000000000000000000000000010000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATT..........................................................23171.00710000010003000000000010000000014931708000005000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATG..........................................................18159.005900000104030000000000600000009371205000008000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATC............................................................................................................19151.0051000002010800000000005000000051021203000001000000000000000000000100000000100000000
.........................................................GAGCGAGCAGAGAAGTATTCA..........................................................................................................21151.005100200100060001000000300000115611700000004000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATCC...........................................................................................................20149.004900000100180000000000400000007931105000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTT............................................................21139.00390000060000000000000010000000835901000006000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTC........................................................25136.00360000010001000000000020000000891206000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTC.........................................................24136.003600000000010000000000200000009631500000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTAT..........................................................................................................20132.00320000020304000000000020000000440801000003000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGC..............................................................19132.003200000002000000000000100000001250901000000000000000000000000000000000002000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATT..........................................................24131.00310000020000000000000030000000862505000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCC.........................................................25130.0030000000000000000000000000000016101000000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCG...............................................................19128.002800000003010000000000000000006313010000010000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAC..........................................................................................................21128.00280000000403000000000060000000212601000003000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATC.........................................................................................................18127.00270000020001000000000080000000230302000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATA..........................................................23127.00270000000001000000000010000000545800000003000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTAT..........................................................................................................18123.002300100004000000010000100000001112200000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCC.......................................................26122.00220000000000000000000020000000541701000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATTC.........................................................25122.002200000100000000000000000000001050500000001000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTATG..........................................................22121.00210000000000000000000000000000643300000005000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATA.........................................................................................................22121.00210000000000000000000010000000930600000001000000000000000000000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCC.............................................................21121.00212000000000000000000010000000540801000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAAA.........................................................................................................22120.00200000000000012000000000000000223601000000000000000000000000000000002000000000010
.........................................................GAGCGAGCAGAGAAGTATTATCCC.......................................................................................................24118.00180000010000000000000050000000220601000001000000000000000000000000000000000000000
...........................................................................................................ACTTTTTTGGTTCGCTATG..........................................................19118.00180000010000000000000030000100162200000002000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTAT..........................................................................................................19117.00170000000302000000000000000000351300000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCT.........................................................24117.00170000010000000000000000000000224700000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAG..........................................................................................................21117.00170000020401000000000010010000102302000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTTC..........................................................................................................21117.00170000000004000000000000000000251301000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGC.........................................................24116.00160000000000000000000000000000241800000001000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTTC...........................................................23115.00150000040000000000000010000000310301000002000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCG...............................................................18115.00150000020000000000000000000000350201000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTC........................................................26115.00150000010000000000000010000000252400000000000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTAT...........................................................21115.00150010000000000000000000000000452300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTCC.......................................................................................................24113.00130000010000000000000010000000211601000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTCCC.........................................................................................................22112.00120000000000000000000000000000051300000002000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCC.............................................................20112.00121010000000000000000000000000131300000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCT.........................................................25111.00110000000000000000000000000000231500000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATCA........................................................................................................2319.0090000000000000000000010000000212300000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATA..........................................................2419.0090000000000000000000000000000300411000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAA...........................................................2219.0090000000000000000000000000000320301000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCC.......................................................2718.0080000000000000000000000000000040200000001000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAC...........................................................2218.0080001000000000000000020000000010100000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGA.........................................................2518.0080000000000000000000000010000111300000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTG...........................................................................................................2018.0080000000001000000000020000000100300000001000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTATC.........................................................................................................1917.0070000000000000000000010000000120003000000000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTC...........................................................................................................1817.0070000000000000000000000000000041101000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTT.........................................................2417.0070000000301000000000020000000000001000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGC.........................................................2517.0070000000000000000000000000000121200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTTC...........................................................2217.0070000000000000000000000000000101201000002000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATCC........................................................................................................1917.0070000010001000000000010000000001101000001000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATTT........................................................................................................1916.0060000000300000000000000000000010100000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTT........................................................2516.0060000001000000000000000000000310100000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAA........................................................2516.0060000000001000000000000000000000000000000000000000000000000000001013000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGG.........................................................2415.0050000000000000000000000000000200300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACC.........................................................................................................2215.0050000010000000000000020000000010000000001000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTATC.........................................................................................................2015.0050000000000000000000010000000200200000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTA...........................................................................................................1915.0050020000000000000000000000000101100000000000000000000000000000000000000000000000
...............................................................................TGCGTGAATC----TGATATCAAA.................................................................................2014.0040000000000000000000020000000010000000000000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATGT.........................................................1914.0040000000100000000000010000000000101000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAA...........................................................2314.0040000000000000000000000000000300100000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTATC.........................................................................................................2114.0040000000000000000000010000000100200000000000000000000000000000000000000000000000
............................................................................................................CTTTTTTGGTTCGCTATC..........................................................1814.0040000010000000000000010000000200000000000000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATT.........................................................................................................1814.0040000010100000000000000000000100100000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCT.......................................................2714.0040000000000000000000000000000001200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAAA.......................................................2614.0040000000000000000000000000000001000000000000000000000000000000000012000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCCC........................................................2514.0040000000000000000000000000000100201000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCT.......................................................2613.0030000000000000000000000000000100000000002000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACCC........................................................................................................2313.0030000000000000000000010000000000200000000000000000000000000000000000000000000000
droMoj3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------SizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
.........................................................GAGCGAGCAGAGAAGTATT-A..........................................................................................................201112.0011200120109
.........................................................GAGCGAGCAGAGAAGTATT-...........................................................................................................19136.00360001035
.........................................................GAGCGAGCAGAGAAGTATT-T..........................................................................................................20113.00130000013
.........................................................GAGCGAGCAGAGAAGTATT-AA.........................................................................................................21112.00120010011
.........................................................GAGCGAGCAGAGAAGTATT-C..........................................................................................................2018.008100007
.........................................................GAGCGAGCAGAGAAGTATT-TT.........................................................................................................2112.002000002
.........................................................GAGCGAGCAGAGAAGTATC-...........................................................................................................1911.001000001
.........................................................GAGCGAGCAGAGAAGTATT-TC.........................................................................................................2111.001000001

Generated: 10/20/2015 at 07:49 PM

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droAna3 scaffold_13417:2478447-2478612 - dan_39 confident CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCT
droBip1 scf7180000395874:49491-49664 - CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-
droKik1 scf7180000302517:1176343-1176465 + GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------
droFic1 scf7180000454073:1724075-1724180 + TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------
droEle1 scf7180000490751:1106989-1107101 + AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------
droRho1 scf7180000761121:198597-198702 - CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------
droBia1 scf7180000302069:1157334-1157434 - TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------
droTak1 scf7180000415169:850576-850717 - GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------
droEug1 scf7180000409109:6720-6831 - AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------
dm3 chrX:19445685-19445807 + dme-mir-974 Known_mirbase GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------
droSim2 x:18335048-18335156 + dsi_68 confident TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droSec2 scaffold_8:1728111-1728208 + dse_40 confident TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------
droEre2 scaffold_4690:9682442-9682548 + der_30 confident CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------
droWil2 scf2_1100000004909:7946617-7946740 + dwi_59 confident T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------
droVir3 scaffold_13042:917559-917647 - dvi-mir-974-2 Known_mirbase --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------
droMoj3 scaffold_6328:2908517-2908601 - dmo_160 candidate-rescued --------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CCGAATCCA--ATCGCGGTTGCAAT-----CCTGGCTTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-CTTTT--AATGGTCAAATATAACTTTTTTGGAA-GCTACGAGGAGTTGTCCTCA-G---CGCTTATGAAATCGAATGATCCCTTCTCCTC---AGCCTSizeHit CountTotal NormTotalM044

Female-body		M058

Embryo		V039

Embryo		V055

Head		V105

Male-body		V106

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................221355.003554101929437
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231114.0011410059117
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................22180.00801005740
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21154.00540002511
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24111.0011000074
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2219.009000054
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2318.008000170
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2114.004000040
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2013.003000120
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2212.002000020
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2112.002000020
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2411.001000001
......................................................................................................ATATAACTTTTTTGGAA-GCTA............................................................2111.001000010
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.001000010
.......................................................................................................TATAACTTTTTTGGAA-GCTACGA.........................................................2311.001000010
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2011.001000010
.........................................................AAGCGAGCAAAGAAGTAGTAG..........................................................................................................2111.001000001
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2011.001000010
...........................................................GCGAGCAAAGAAGTAGTATTG........................................................................................................2111.001000010
droBip1
CCGAACC-A--ATCGCGGTTGCAATCCTTGGGTGGATTGGGGTAGGTCATCTCCTCTAAGCGAGCAAAGAAGGCGTATTTGTTTT-TGTTTGTAATGGTCAAATATAACTTTTTTGGAA-GCTACAAGGAGTTGTCCTCA-G---CGCTTACGAAATTGAATGATCCCATCTCATCTTGGGCC-SizeHit CountTotal NormTotal
No Reads
droKik1
GAGTATA-GCCG--------------GGACATCTCCGCCAAGCTGGTCTTTTCCTCTAAGCGAGCAAAGAAGTGGTATTTGTTGC-ACTTGAAATTATTCAAATATAACTTTTTTGGAA-GCTAGAAGGAGTTGCCCACA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
TAAAAAC------------------------------AAAAAAGGAGCATTTCCCCTAAGCGAGCAAAGAAGTAGTATTTGTTCG-TGCTG--AAAACTCAAATATAACTTTTTTGAAA-GCTAAAAGGATTTGTTTGCA--------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAAATA-CGG-------------------GCTGACTCGGAAAAGGTCATTTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTCC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
CGA---------------------------GCTTTCTCGAAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-TTCTG--AAAAGTCAAATATAACTTTTTTGAAA-GCTACGAGGATTTGTTC-----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
TAGAAT------------------------------TTAGAAAAGGTCATCTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T----AAAAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTATCCT----------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
GATAATA-ATTT--------------GG-----AACTTCGAATAGGTCATCTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTG-T-T-G--AAGAGTCAAATATAACTTTTTTGGAA-GCTAAGAGGATTTGTCCTAA-GCAGCTTGGTT-ATTTCGAATTATTCGTT--------------SizeHit CountTotal NormTotal
No Reads
droEug1
AAACATA-ATAA--------------TTAAGATTAAGAATAATTGGATATGTCCTCTAAGCGAGCAAAGAAGTAGTATTTGTTTA-T-T------AAGTCGAATATAACTTTTTTGGAA-GCTAAGCGGATGTATC------------------------------------------------SizeHit CountTotal NormTotal
No Reads
dm3
GCGTGA-----ATCCCAGGTCCAG--GTAAGCTCAATTGTCACCGGTCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-T-C----CAAGAGCAAATATAACTTCATTGGAA-GCTAAGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalGSM154618

Ovary		GSM154620

Ovary		GSM154621

Ovary		GSM154622

Ovary		GSM180328

Head		GSM180329

Mixed-body		GSM180330

Embryo		GSM180331

Embryo		GSM180332

Embryo		GSM180333

Embryo		GSM180334

Larvae		GSM180335

Disc		GSM180336

Pupae		GSM180337

S2		GSM239041

Head		GSM239050

Head		GSM239051

S2		GSM239052

S2		GSM246084

Head		GSM266765

S2		GSM280082

Ovary		GSM280083

Ovary		GSM280084

Ovary		GSM280085

Testis		GSM280086

Ovary		GSM280087

S2-NP		GSM280088

S2-NP		GSM312995

Head		GSM313160

Head		GSM313161

Head		GSM313162

Head		GSM313163

Head		GSM313164

Head		GSM313165

Head		GSM343287

Embryo		GSM379050

Ovary		GSM379051

Ovary		GSM379052

Ovary		GSM379053

Ovary		GSM379054

Ovary		GSM379055

Ovary		GSM379056

Ovary		GSM379057

Ovary		GSM379058

Ovary		GSM379059

Ovary		GSM379060

Ovary		GSM379061

Ovary		GSM379062

Ovary		GSM379063

Ovary		GSM379064

Ovary		GSM379065

Ovary		GSM379066

Ovary		GSM379067

Ovary		GSM424739

S2		GSM424740

S2		GSM424741

S2		GSM467729

Female-body		GSM467730

Female-body		GSM467731

Female-body		M002

CS		M003

Male-body		M004

Male-body		M005

ML-DmD32		M006

ML-DmD32		M029

OSC		M030

OSC		M031

OSC		M032

S2-R+		M033

S2-R+		M034

S2-R+		M035

S2-R+		M036

S2-R+		M037

S2-R+		M038

S2-R+		M039

S2-R+		M048

S2-R+		OSS2

OSS		OSS6

OSS		OSS7

OSS		OSS8

OSS		S1

Head		S10

Embryo		S11

Embryo		S12

Embryo		S13

Embryo		S14

Embryo		S15

S2-GMR		S16

Kc		S17

Larvae		S18

Larvae		S19

Pupae		S2

Head		S20

Pupae		S21

Disc		S22

Head		S23

Female-body		S24

Male-body		S25

Larvae		S26

Larvae		S27

Pupae		S28

Pupae		S29

Head		S3

Male-body		S30

S2-GMR		S31

S2		S32

S2		S33

Kc		S34

Kc		S35

Kc		S4

Female-body		S5

Disc		S6

Embryo		S7

Embryo		S8

S2		S9

Embryo		SRR001337

Head		SRR001338

Head		SRR001339

Head		SRR001340

Head		SRR001341

Head		SRR001342

Head		SRR001343

Head		SRR001344

Head		SRR001345

Head		SRR001346

Head		SRR001347

Head		SRR001348

Head		SRR001349

Head		SRR001664

Head		SRR010951

Ovary		SRR010952

Ovary		SRR010953

Ovary		SRR010954

Ovary		SRR010955

Ovary		SRR010956

Ovary		SRR010957

Ovary		SRR010958

Ovary		SRR010959

Ovary		SRR010960

Ovary		SRR014268

Embryo		SRR014269

Embryo		SRR014270

Embryo		SRR014271

Embryo		SRR014272

Embryo		SRR014273

Ovary		SRR014274

Ovary		SRR014275

Ovary		SRR014276

Ovary		SRR014277

Ovary		SRR014278

Ovary		SRR014279

Ovary		SRR014280

Ovary		SRR014281

Ovary		SRR014282

Ovary		SRR023197

S2		SRR023399

S2		SRR023400

S2		SRR023402

S2		SRR023407

S2		SRR029028

S2		SRR029029

S2		SRR029030

S2		SRR029031

S2		SRR029032

S2		SRR029033

S2		SRR029608

Head		SRR029633

Head		SRR030145

gb3		SRR031692

Head		SRR031693

Head		SRR031694

Head		SRR031696

Head		SRR031697

Head		SRR031698

Head		SRR031699

Head		SRR031700

Head		SRR031701

Head		SRR031702

Head		SRR031703

Head		SRR031704

Head		SRR032092

S2		SRR032093

S2		SRR032094

S2		SRR032095

S2-NP		SRR032096

S2-NP		SRR032152

Head		SRR060643

Testis		SRR060644

Ovary		SRR060645

Testis		SRR060646

Ovary		SRR060647

Ovary		SRR060648

Ovary		SRR060649

Ovary		SRR060650

Testis		SRR060651

Ovary		SRR060652

Testis		SRR060653

Ovary		SRR065151

Ovary		SRR065152

Ovary		SRR065153

Ovary		SRR065154

Ovary		SRR065155

Ovary		SRR065800

Ovary		SRR065801

Ovary		SRR065802

Ovary		SRR065803

Ovary		SRR065804

Ovary		SRR065805

Ovary		SRR065806

Ovary		SRR065807

Ovary		SRR097865

S2-NP		SRR097866

S2-NP		SRR097867

S2-NP		SRR298536

Ovary		SRR298537

Ovary		SRR298711

Ovary		SRR298712

Ovary		SRR317110

Ovary		SRR317111

Ovary		SRR317112

Ovary		SRR317113

Ovary		SRR317114

Ovary		SRR317115

Ovary		SRR317116

Ovary		SRR317117

Ovary		SRR341115

S2		SRR341116

S2		SRR341117

S2		SRR341118

S2		SRR351332

Mixed-body		SRR351333

Mixed-body		T004

OSC		T005

CME-L1		V001

Embryo		V002

Embryo		V003

S2		V006

Female-body		V007

Head		V008

S2		V009

CME-L1		V010

ML-DmD20-C5		V011

Sg4		V012

Male-body		V013

Head		V014

DTT		V015

DreRFHV		V018

Kc167		V019

GM2		V020

S2-R+		V021

ML-DmD21		V022

ML-DmD32		V023

Head		V024

Kc167		V025

S2-R+		V026

1182-2H		V027

ML-DmD21		V028

CME-W1-Cl.8+		V029

ML-DmD9		V030

ML-DmD8		V031

GM2		V032

S1		V033

CME-W1-Cl.8+		V034

ML-DmD16-C3		V035

ML-DmD32		V036

ML-DmD20-C5		V037

S2		V038

S2		V063

Ovary		V0632

Ovary		V064

Ovary		V0642

Ovary		V065

Ovary		V0652

Ovary		V066

Ovary		V0662

Ovary		V067

S2-NP		V073

mbn2		V074

S3		V075

ML-DmBG1-C1		V076

ML-DmBG3-C2		V077

Head		V078

Head		V079

Head		V080

Head		V081

Embryo		V082

Embryo		V083

Male-body		V084

Female-body		V085

CME-W2		V086

Female-body		V088

Ovary		V0882

Ovary		V089

Ovary		V0892

Ovary		V090

Male-body		V091

fGS/OSS		V092

Male-body		V093

Male-body		V094

S2-R+		V095

S2-R+		V096

Ovary		V097

Ovary		V098

Ovary		V125

ML-DmD9		V126

CME-L1		V127

G2		V128

S3		V129

ML-DmBG1-C1		V130

ML-DmBG3-C2		V131

ML-DmD16-C3		V132

ML-DmD32		V133

Sg4		V134

ML-DmD8		V135

CME-W2		V136

Male-body		V137

Head		V138

Male-body		V139

Female-body		V140

Female-body		V141

Female-body		V142

Female-body		V144

OSC		V145

S2		V146

S1		V147

1182-2H		V148

mbn2		GSM1528798

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231124226.0012422600000000000200000000000000000000000000002000100000000000000000000000000000000001000010002010023007001002001000011000300001000100000000000000000000110011620000000000000003010008010004000000291603919000023904883100000010000071007240100000001000000000000011016400161010210100024701253102100332124612041103022310810237090002039319496830211056261063026224037155201435361112731226492400
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................22198506.00985060000000000020000000000011000000000000000010001000000000000000000000000000000000000007000100200700400233000000005000000002010200000000000000000000000003000000000000000200100071100040000000208024190000275024911000000300000700041811000000000000000000001010073002200201200000135098700401022403190301800241263061891700000325066653500012373385459462313017582149114372192950729815390
.......................................................................................................TATAACTTCATTGGAA-GCTAAG..........................................................2213390.00339000000000000100000000000420000000000000000201000000100000000000000000000000000000000000000000006004000000002010080000000000100000000000000000000000000080000000000000000101000101000200000002692163000022002720000000000004900011000000100000000000000000000090040010000000004024110000036000000040020000112331000000360364600020001776100000305026000000100120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................2112894.002894000000000000000000000006000000000000000000000000000000000000000000000000000000000000000000000100200000000000001000000000000100000000000000000000000000000000000000000010000020000000000000241153000021016900000000000000000000000000000000000000000000001000002100000000201260000000100000001000110100140100000120283000000032091200000210409000000155050
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................241598.00598000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000300000000000604100000052000000000000000001000000000000000000000000000000000000100000000060000000000000000000000000000000003010400000004390000100010300110025000
.......................................................................................................TATAACTTCATTGGAA-GCTA............................................................201383.00383000000000000000000000008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000020000010000000000000130800001409000000000000000000000000000000000100000000000010010000000000000071000000010000000200001000050100000405300000001890000000000100100040010
......................................................................................................ATATAACTTCATTGGAA-GCTAAG..........................................................231347.0034700000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000000000200000000000000000000000000000000000080800001401100000000000001000010000000000000000000000000002000000000000000002800000000000000000000000404000000200330002000241000000100000000009000
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................241316.00316000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000204000000300000000000000000000000000000000000000000000001000000000000000002000000000000000000000000010000000001000000002870000003000000000012000
......................................................................................................ATATAACTTCATTGGAA-GCTA............................................................211281.00281000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000100000000000000000000908000010010000000000000000000000000000000000000000000000000010000000000000041000000110000000000000010020000000103200000011630000000000100100022000
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................221270.00270000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000007000000400000000000000000000000000000000000000000000000000000000000000008000000000000000000000000010000000000100000002330000002000100000011000
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................191267.002670000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000001030000101000000000000000000100000000000000000000000000000000000000000000025000000000000000000000000010100000201100000111831010102001200000035000
......................................................................................................ATATAACTTCATTGGAA-GCT.............................................................201158.00158000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000701000000200000000000000000000000000000000000000000000000000000000000000003600000000000000010000000000000000000310000000810010000000000000023000
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................201145.001450000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001100000100000000000000011000030100000000000000000000000000000000000000000000000000000000000000000900000000000000000000000001000000000110000001920000001001000000011000
.......................................................................................................TATAACTTCATTGGAA-GCTAA...........................................................211134.001340000000000000000000000040000000000000000000000000000000000000000000000000000000000000000000003002000000000000000000000000000000000000000000000000000000000000000000000100000100000000000009060000130170000000000000000000000000000000000000000000000000000000000000000130000000000000001000000000100000001002000000054000000000000000006000
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................241118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000800000010000000000000000000000000000000000000000000000000000000000000000010000000000000001000000000000000002011000001086000000100030000003000
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................221118.0011800000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000020110000001104000000001000000005000
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................231112.0011200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000500000030000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000030200000000811000002000000000014000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGT.........................................................231105.0010500000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000060100001010000000000000000001000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000077000000000000000005000
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................21198.00980000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000004000000000000000000000000000000000000000000000000000000000000001010000000000000000000000000000000001010000000082000000000010000003000
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................23175.007500000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000011000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000001010000000051000000100000000007000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGA.........................................................23172.007200000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000010010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040200001012000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000001002000000044000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCT.............................................................19165.006500000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000002000000000000000000000000000000000000000000000000000000000000100003050000000000000000000000000000000000000000000000000000000000000000360000000000000000000000000000000000021000000000000000000000000013000
......................................GTCACCGGTCATGTCCTCC...............................................................................................................................19163.006300000000000000000000000400000000000000000000000000000000000000000000000000000000000010000001010010011000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000010000000000000000000000000000000000000000000000000000000000000000700000000000000000000000000000000000000000000180000000000000000025010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................24162.00620000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000100000000010000000056000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAG.............................................................................................................18140.00400000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000040000503000000000000000000000000000000000000000000000000000000000000000050000000000000000000000000010000000021000000010000000000010000008000
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................23138.00380000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000030000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000031000000000000000001000
......................................................................................................ATATAACTTCATTGGAA-GCTAA...........................................................22131.00310000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002100000204000000000000000000000000000000000000000000000000000000000000000020000000000000000000000000000000000000000000019000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................23126.0026000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000003000000700000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000006000000000000000009000
.....................................TGTCACCGGTCATGTCCTCC...............................................................................................................................20125.0025000000000000000000000004000000000000000000000000000000000000000000000000000000000001000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000003000000000000000000000000000000000000000000008000000000000000007000
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................22121.00210000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000018000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAA..........................................................22114.0014000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000010300000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000002000000003000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTATTATC......................................................................................................25113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAAGC.........................................................23113.00130000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000010000000000000000000000
.............................................................GAGCAAAGAAGTAGTATTT........................................................................................................19112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000103000010300000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000003000000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................21112.0012000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000100000009000000000000000000000
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................18110.0010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000102000010100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000003000
.......................................TCACCGGTCATGTCCTCC...............................................................................................................................1819.009000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000100000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000000000000000000000000000000000000000000001000
............................................................CGAGCAAAGAAGTAGTATTT........................................................................................................2019.009000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000008000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATG.........................................................................................................2218.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000200000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000104000000001000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGA.........................................................2418.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006200000000000000000000
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2018.008000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1917.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000007000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTT...........................................................................................................2017.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000100000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTGTG.....................................................................................................2617.007000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000006000000000000000001000
.........................................................AAGCGAGCAAAGAAGTAGTAC..........................................................................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000004000000000000000001000
........................................................................................................ATAACTTCATTGGAA-GCTAAG..........................................................2116.006000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000000000000005000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAAGT.........................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
..............................................................AGCAAAGAAGTAGTATTT........................................................................................................1815.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTC.......................................................................................................2415.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000005000000000000000000000
.......................................................................................................TATAACTTCATTGGAA-GCTAT...........................................................2115.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000002000000000000000000000000000000000000000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGTATTTAA......................................................................................................2515.005000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000010000000001000000003000000000000000000000
.........................................................AAGCGAGCAAAGAAGTAGC............................................................................................................1914.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000001000000000000000000000000000000000100000000002000000000000000000000
......................................................................................................ATATAACTTCATTGGAA-GCTAT...........................................................2214.004000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000004000000000000000000000
droSim2
TGAA-TG--------------------TAAACTCAATTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTGGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM023

Head		M024

Male-body		M025

Embryo		M053

Female-body		O001

Testis		O002

Head		SRR553485

Ovary		SRR553486

Ovary		SRR553487

Ovary		SRR553488

Ovary		SRR618934

Ovary		V044

Embryo		SRR902008

Ovary		SRR902009

Testis		SRR1275487

Male larvae		SRR1275485

Male prepupae		SRR1275483

Male prepupae
.........................................................AAGCGAGCAAAGAAGTGGTATT.........................................................................................................2211194.001194030004811024112300641001
.........................................................AAGCGAGCAAAGAAGTGGTAT..........................................................................................................211871.00871020017930000200685000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221431.004310110235584436140024000
.........................................................AAGCGAGCAAAGAAGTGGTA...........................................................................................................201270.0027000002253000020040000
.........................................................AAGCGAGCAAAGAAGTGGTATTT........................................................................................................231225.0022502005210000200168000
..........................................................AGCGAGCAAAGAAGTGGTATTT........................................................................................................221139.0013903001300000000123000
.......................................................................................................TATAACTTCTTTGAAA-GC..............................................................181136.001360100133200000000000
.........................................................AAGCGAGCAAAGAAGTGG.............................................................................................................181118.001180000116100001000000
.......................................................................................................TATAACTTCTTTGAAA-GCTA............................................................20190.0090000088100000001000
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................21183.0083000082100000000000
..........................................................AGCGAGCAAAGAAGTGGTATT.........................................................................................................21176.0076010080000000067000
.......................................................................................................TATAACTTCTTTGAAA-GCT.............................................................19163.0063030058100001000000
......................................................................................................ATATAACTTCTTTGAAA-GCTAG...........................................................22157.00570000231000000033000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................23147.0047000047000000000000
.........................................................AAGCGAGCAAAGAAGTGGT............................................................................................................19139.0039000038000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTT.......................................................................................................24126.0026000000000000026000
..........................................................AGCGAGCAAAGAAGTGGTAT..........................................................................................................20116.0016000030000000013000
.........................................................AAGCGAGCAAAGAAGTGGTATTA........................................................................................................23116.0016000000000000016000
..........................................................AGCGAGCAAAGAAGTGGTATTTT.......................................................................................................23115.0015000000000000015000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................23112.001200009000010002000
..........................................................AGCGAGCAAAGAAGTGGTA...........................................................................................................19110.001000006000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2117.00701005000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGG..........................................................2117.00700007000000000000
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1816.00613002000000000000
......................................................................................................ATATAACTTCTTTGAAA-G...............................................................1816.00600006000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGG..........................................................1814.00400000000004000000
.........................................................AAGCGAGCAAAGAAGTGGTAA..........................................................................................................2114.00400000000000004000
.........................................................AAGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2414.00400000000000004000
......................................................................................................ATATAACTTCTTTGAAA-GCT.............................................................2014.00412001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAA.......................................................................................................2413.00300000000000003000
......................................................................................................ATATAACTTCTTTGAAA-GC..............................................................1913.00300003000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2513.00300000000000003000
.........................................................AAGCGAGCAAAGAAGTGGTATA.........................................................................................................2213.00300000000000003000
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGA.........................................................2312.00200000000001001000
..........................................................AGCGAGCAAAGAAGTGGTATTTG.......................................................................................................2312.00200000000000002000
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1912.00201001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTT...........................................................................................................2012.00200000000000002000
........................................................................................................ATAACTTCTTTGAAA-GCTAG...........................................................2012.00200002000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTA........................................................................................................2212.00200000000000002000
..........................................................AGCGAGCAAAGAAGTGGTT...........................................................................................................1911.00100000000000001000
.....................................................................................................AATATAACTTCTTTGAAA-GCTAG...........................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTA......................................................................................................2411.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTAAA.........................................................................................................2211.00100000000000001000
...........................................................GCGAGCAAAGAAGTGGTATTT........................................................................................................2111.00100000000000001000
...............................................................GCAAAGAAGTGGTATT.........................................................................................................1611.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATCA........................................................................................................2311.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2411.00100000000000001000
..........................................................AGCGAGCAAAGAAGTGGT............................................................................................................1811.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGC......................................................................................................2511.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTAA..........................................................................................................2011.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTAGGT.........................................................2211.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATAA........................................................................................................2311.00100000000000001000
............................................................CGAGCAAAGAAGTGGTAT..........................................................................................................1811.00100001000000000000
...................................................................................................CAAATATAACTTCTTTGAAA-GC..............................................................2211.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATTTA.......................................................................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATAAA.......................................................................................................2411.00100000000000001000
.......................................TCACTGGTCGTGTCCTCCA..............................................................................................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTGGTATTAAA......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGGTATTTTT......................................................................................................2511.00100000000000001000
.........................................................AAGCGAGCAAAGAAGT...............................................................................................................1611.00100000000001000000
............................................................CGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2311.00100001000000000000
...........................................................................................................ACTTCTTTGAAA-GCTAGGT.........................................................1911.00100000000001000000
.........................................................AAGCGAGCAAAGAAGTGGTATTTGCG.....................................................................................................2611.00100001000000000000
............................................................CGAGCAAAGAAGTGGTATTTGCGT....................................................................................................2411.00100001000000000000
..........................................................AGCGAGCAAAGAAGTGGTATA.........................................................................................................2111.00100000000000001000
........................................................................................................ATAACTTCTTTGAAA-GCTA............................................................1911.00100001000000000000
.........................................................AAGCGAGCAAAGAAGTA..............................................................................................................1711.00100000000000001000
......................................................................................................ATATAACTTCTTTGAAA-GCTAGA..........................................................2311.00100000000000001000
.........................................................AAGCGAGCAAAGAAGTGC.............................................................................................................1820.50100000000001000000
.........................................................AAGCGAGCAAAGAAG................................................................................................................1520.50100000000001000000
.............................................................GAGCAAAGAAGTGGT............................................................................................................1520.50100000000001000000
...........................................................................................................ACTTCTTTGAAA-GCTAGAA.........................................................1950.20100000000000001000
droSec2
TCGA--------------------------------TTGTCACTGGTCGTGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGCGTT-T-C----CAAGAACAAATATAACTTCTTTGAAA-GCTAGGTGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM054

Female-body		V113

Male-body		V114

Embryo		V115

Head
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2211247.001247211901144
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................231186.00186118113
.......................................................................................................TATAACTTCTTTGAAA-GCTAGG..........................................................221105.00105486105
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21135.003513301
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................22118.001801710
.......................................................................................................TATAACTTCTTTGAAA-GCTAG...........................................................2116.0060600
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................2015.0050500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2113.0031101
.......................................TCACTGGTCGTGTCCTCC...............................................................................................................................1812.0020011
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGT.........................................................2312.0020110
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1912.0020200
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2212.0020200
........................................................CAAGCGAGCAAAGAAGTAGTAT..........................................................................................................2211.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTAGG..........................................................2311.0010100
......................................GTCACTGGTCGTGTCCTCC...............................................................................................................................1911.0010010
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010001
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0011000
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2411.0010100
......................................................................................................ATATAACTTCTTTGAAA-GCTA............................................................2111.0010010
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGA..........................................................2211.0010100
.......................................................................................................TATAACTTCTTTGAAA-GCTAGGC.........................................................2311.0011000
..........................................................AGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2311.0010100
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010100
droEre2
CAGAACC-----------------------ACTAACTCAGCACTGGGCATGTCCTCCAAGCGAGCAAAGAAGTAGTATTTGTGTT-C-C----AAAAGTCAAATATAACTTTTTTGGAA-GCTACGGGGATTTGCCC-----------------------------------------------SizeHit CountTotal NormTotalM055

Female-body		M057

Embryo		V060

Head		V040

Embryo		V107

Male-body		V108

Head		GSM1528801

follicle cells
.........................................................AAGCGAGCAAAGAAGTAGTATT.........................................................................................................2213284.003284507029533190
.........................................................AAGCGAGCAAAGAAGTAGTATTT........................................................................................................2311614.0016142011014581430
.......................................................................................................TATAACTTTTTTGGAA-GCTACG..........................................................221178.001786050155120
.........................................................AAGCGAGCAAAGAAGTAGTAT..........................................................................................................21185.008500008410
.........................................................AAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................24143.004300004120
.........................................................AAGCGAGCAAAGAAGTAGTA...........................................................................................................20110.001000001000
.......................................................................................................TATAACTTTTTTGGAA-GCTACGT.........................................................2317.0070000700
......................................................................................................ATATAACTTTTTTGGAA-GCTACG..........................................................2316.0060000420
.........................................................AAGCGAGCAAAGAAGTAGTATTTA.......................................................................................................2415.0050000500
..........................................................AGCGAGCAAAGAAGTAGTATT.........................................................................................................2115.0052000300
.........................................................AAGCGAGCAAAGAAGTAGT............................................................................................................1914.0040000400
.........................................................AAGCGAGCAAAGAAGTAGTATTTG.......................................................................................................2413.0030000300
......................................................................................................ATATAACTTTTTTGGAA-GCTACGT.........................................................2412.0020000200
.......................................................................................................TATAACTTTTTTGGAA-GCTA............................................................2012.0020000200
............................................................CGAGCAAAGAAGTAGTATT.........................................................................................................1912.0020000110
..........................................................AGCGAGCAAAGAAGTAGTATTT........................................................................................................2212.0020000200
........................................................CAAGCGAGCAAAGAAGTAGTATTTT.......................................................................................................2511.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTG........................................................................................................2311.0010000100
.......................................................................................................TATAACTTTTTTGGAA-GCTAC...........................................................2111.0010000100
......................................................................................................ATATAACTTTTTTGGAA-GCTAC...........................................................2211.0010000100
.........................................................................................................TAACTTTTTTGGAA-GCTACG..........................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTC........................................................................................................2311.0010000010
.............................................................GAGCAAAGAAGTAGTATT.........................................................................................................1811.0010000100
...........................................................GCGAGCAAAGAAGTAGTATT.........................................................................................................2011.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTA........................................................................................................2311.0010000010
........................................................CAAGCGAGCAAAGAAGTAGTATTT........................................................................................................2411.0010000010
..........................................................AGCGAGCAAAGAAGTAGTAT..........................................................................................................2011.0010000100
...........................................................GCGAGCAAAGAAGTAGTATTT........................................................................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATTAA.......................................................................................................2411.0010000100
........................................................................................................ATAACTTTTTTGGAA-GCTACG..........................................................2111.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATA.........................................................................................................2211.0010000100
........................................................CAAGCGAGCAAAGAAGTAGTATT.........................................................................................................2311.0010000100
.........................................................AAGCGAGCAAAGAAGTAGTATC.........................................................................................................2211.0010000100
droWil2
T------------------------------------TTCCAATGGCCATATCCTCTAAGCGAGCAAGAAAGTGGTATTTGTCTT-T-G----GAAATTCAAATATAACTTTTTTGGAA-GCTACAAGGCAATGTCCACAATCAACGATAAC-AAATCAAGTGATCTC----------------SizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
.........................................................AAGCGAGCAAGAAAGTGGTATT.........................................................................................................221662.006621164974
.........................................................AAGCGAGCAAGAAAGTGGTATTT........................................................................................................231150.001500114432
.........................................................AAGCGAGCAAGAAAGTGGTAT..........................................................................................................21151.0051005001
.........................................................AAGCGAGCAAGAAAGTGGTATTTC.......................................................................................................2415.00500500
.........................................................AAGCGAGCAAGAAAGTGGTA...........................................................................................................2015.00500500
.......................................................................................................TATAACTTTTTTGGAA-GCTACA..........................................................2215.00500410
.........................................................AAGCGAGCAAGAAAGTGGTATTTCC......................................................................................................2512.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATC.........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTA........................................................................................................2312.00200200
..........................................................AGCGAGCAAGAAAGTGGTATTT........................................................................................................2212.00200200
.........................................................AAGCGAGCAAGAAAGTGGTATTC........................................................................................................2311.00100100
.........................................................AAGCGAGCAAGAAAGTGGTATTTT.......................................................................................................2411.00100010
.........................................................AAGCGAGCAAGAAAGTGGTATTAA.......................................................................................................2411.00100100
..........................................................AGCGAGCAAGAAAGTGGTATTTA.......................................................................................................2311.00100100
droVir3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATTATTTGCGTGAATC----TGATATCAAATAAGACTTTTTTGGTTCGCTATGAGGTATTGTTC-----------------------------------------------SizeHit CountTotal NormTotalM027

Male-body		M028

Head		M047

Female-body		M061

Embryo		SRR060654

Ovary		SRR060655

Testis		SRR060656

Ovary		SRR060657

Testis		SRR060658

Ovary		SRR060659

Testis		SRR060660

Ovary		SRR060661

Embryo		SRR060662

Embryo		SRR060663

Embryo		SRR060664

Male-body		SRR060665

Female-body		SRR060666

Male-body		SRR060667

Female-body		SRR060668

Male-body		SRR060669

Female-body		SRR060670

Testis		SRR060671

Male-body		SRR060672

Female-body		SRR060673

Ovary		SRR060674

Ovary		SRR060675

Ovary		SRR060676

Ovary		SRR060677

Ovary		SRR060678

Testis		SRR060679

Testis		SRR060680

Testis		SRR060681

Testis		SRR060682

Embryo		SRR060683

Testis		SRR060684

Embryo		SRR060685

Embryo		SRR060686

Embryo		SRR060687

Embryo		SRR060688

Ovary		SRR060689

Testis		SRR1106712

embryo_0-2h		SRR1106713

embryo_0-2h		SRR1106714

embryo_2-4h		SRR1106715

embryo_4-6h		SRR1106716

embryo_4-6h		SRR1106717

embryo_6-8h		SRR1106718

embryo_6-8h		SRR1106719

embryo_8-10h		SRR1106720

embryo_8-10h		SRR1106721

embryo_10-12h		SRR1106722

embryo_10-12h		SRR1106723

embryo_12-14h		SRR1106724

embryo_12-14h		SRR1106725

embryo_14-16h		SRR1106726

embryo_14-16h		SRR1106727

larvae		SRR1106728

larvae		SRR1106729

mixed whole adult body		SRR1106730

embryo_16-30h		V047

Embryo		V053

Head		V116

Male-body		GSM1528803

follicle cells		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
.........................................................GAGCGAGCAGAGAAGTATTAT..........................................................................................................21130295.0030295601009735223105332591201120003010696187699636161201793686116246132765100000000000000000101034000012010100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATG..........................................................2319970.0099705013053007570117000010002051031421122317178665728040404001429350000000000000000020002000221001000000010
.......................................................................................................TAAGACTTTTTTGGTTCGCTAT...........................................................2215421.00542100200147271054000000002019400021111515106146713820140000003610000000000000000000001800000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATC.........................................................................................................2214748.00474820120114821321900000000003992010000902863408118002620000018100000000000000000000016200000000000000000
.........................................................GAGCGAGCAGAGAAGTATTC...........................................................................................................2014144.0041441019041892073533000000010237002011065987832110230169000002050000000000000000000006300000010111200000
.........................................................GAGCGAGCAGAGAAGTATTA...........................................................................................................2013985.003985101046506121830000000000167001111377394331811280134000011210000000000000000000007600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAT...........................................................2313562.003562001021002300380000000000115002022010037672788690115001042170000000000000000000001000000020002000000
......................................................................................................ATAAGACTTTTTTGGTTCGCT.............................................................2113060.0030607030330908118510000000101240041213566552183644014511000324000000000000000000000900010012012200000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATG..........................................................2412923.0029231502028941804000000001001070000421885519224687078000032240000000000000000000001301300001000000000
.........................................................GAGCGAGCAGAGAAGTATT............................................................................................................1912778.00277800202691987841720001000006800421433283698629705000000400000000000000000000013600000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTT........................................................................................................2311645.00164501000430193112610000001116301000023913188431803700000390000000000000000000002300000010000000000
.........................................................GAGCGAGCAGAGAAGTATTATCC........................................................................................................2311201.001201106016700037000000000015700001001281659934109500000620000000000000000000004100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTA............................................................2111039.001039003005709080000000000580010010229192972550390000087000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATT.........................................................................................................2211011.00101100102140185211300001200003600200102221584118001300000190000000000000000000011800000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCT.............................................................201959.00959100001170260210000000000540020010152183691860520000091000000000000000000000100000001110000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTA............................................................221604.00604001002408013000000000090010000164120351200260000069000000000000000000000700000030103000000
.........................................................GAGCGAGCAGAGAAGTATTATTC........................................................................................................231540.005401000027011340000000000290000000128873813201400000270000000000000000010001400000050100000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGT.........................................................241522.00522000012622903000000000002800000028574221180280000075000000000000000000000100001000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATC..........................................................231417.0041710001510040000000000281000000836447980210000060000000000000000001000100000000100000000
.........................................................GAGCGAGCAGAGAAGTAT.............................................................................................................181322.0032200001100118548100000000040021210385192802000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAA..........................................................................................................211295.0029500000201016000000000012000011147662910017121004000000000000000000000200001000000000000
.........................................................GAGCGAGCAGAGAAGTATTCC..........................................................................................................211241.002410000026001140000000000190000000244617600150000013000000000000000000000600000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTC............................................................221222.00222800002400020000000000140000000262523480140000035000000000000000000000300000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGT.........................................................251217.0021700000120110700000000001000000006636941040000021000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTT...........................................................................................................201203.00203001001146036100000000040000001234293105000000000000000000000000000200000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTT............................................................221188.001880000019100100000000004000000038311352060000021000000000000000001000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATC..........................................................241151.00151000004000000000000007000000047231045040000010000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTTC.......................................................................................................241144.001440000030001000000000101200000003031933010000002000000000000000000000300000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCC.........................................................241130.0013000200700000000000000600000001422224107000008000000000000000000000001000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTC............................................................21199.009900000800000000000000100000100627915090000014000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGC..............................................................20199.00990010070311000000000040000100202981803000003000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGA.........................................................24182.00820000020001000000000010000000251252702000006000000000000000000000000010000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATT..........................................................23171.00710000010003000000000010000000014931708000005000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATG..........................................................18159.005900000104030000000000600000009371205000008000000000000000000000100000000000000000
.........................................................GAGCGAGCAGAGAAGTATC............................................................................................................19151.0051000002010800000000005000000051021203000001000000000000000000000100000000100000000
.........................................................GAGCGAGCAGAGAAGTATTCA..........................................................................................................21151.005100200100060001000000300000115611700000004000000000000000000000300000000000000000
.........................................................GAGCGAGCAGAGAAGTATCC...........................................................................................................20149.004900000100180000000000400000007931105000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTT............................................................21139.00390000060000000000000010000000835901000006000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTC........................................................25136.00360000010001000000000020000000891206000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTC.........................................................24136.003600000000010000000000200000009631500000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTAT..........................................................................................................20132.00320000020304000000000020000000440801000003000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGC..............................................................19132.003200000002000000000000100000001250901000000000000000000000000000000000002000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATT..........................................................24131.00310000020000000000000030000000862505000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCC.........................................................25130.0030000000000000000000000000000016101000000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCG...............................................................19128.002800000003010000000000000000006313010000010000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAC..........................................................................................................21128.00280000000403000000000060000000212601000003000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATC.........................................................................................................18127.00270000020001000000000080000000230302000005000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATA..........................................................23127.00270000000001000000000010000000545800000003000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTAT..........................................................................................................18123.002300100004000000010000100000001112200000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCC.......................................................26122.00220000000000000000000020000000541701000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATTC.........................................................25122.002200000100000000000000000000001050500000001000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTATG..........................................................22121.00210000000000000000000000000000643300000005000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATA.........................................................................................................22121.00210000000000000000000010000000930600000001000000000000000000000100000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCC.............................................................21121.00212000000000000000000010000000540801000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAAA.........................................................................................................22120.00200000000000012000000000000000223601000000000000000000000000000000002000000000010
.........................................................GAGCGAGCAGAGAAGTATTATCCC.......................................................................................................24118.00180000010000000000000050000000220601000001000000000000000000000000000000000000000
...........................................................................................................ACTTTTTTGGTTCGCTATG..........................................................19118.00180000010000000000000030000100162200000002000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTAT..........................................................................................................19117.00170000000302000000000000000000351300000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCT.........................................................24117.00170000010000000000000000000000224700000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTAG..........................................................................................................21117.00170000020401000000000010010000102302000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTTC..........................................................................................................21117.00170000000004000000000000000000251301000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGC.........................................................24116.00160000000000000000000000000000241800000001000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTTC...........................................................23115.00150000040000000000000010000000310301000002000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCG...............................................................18115.00150000020000000000000000000000350201000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTC........................................................26115.00150000010000000000000010000000252400000000000000000000000000000000000000000000000
........................................................................................................AAGACTTTTTTGGTTCGCTAT...........................................................21115.00150010000000000000000000000000452300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATTCC.......................................................................................................24113.00130000010000000000000010000000211601000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTCCC.........................................................................................................22112.00120000000000000000000000000000051300000002000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCC.............................................................20112.00121010000000000000000000000000131300000002000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATCT.........................................................25111.00110000000000000000000000000000231500000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTATCA........................................................................................................2319.0090000000000000000000010000000212300000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATA..........................................................2419.0090000000000000000000000000000300411000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAA...........................................................2219.0090000000000000000000000000000320301000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCC.......................................................2718.0080000000000000000000000000000040200000001000000000000000000000100000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTAC...........................................................2218.0080001000000000000000020000000010100000003000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGA.........................................................2518.0080000000000000000000000010000111300000001000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTG...........................................................................................................2018.0080000000001000000000020000000100300000001000000000000000000000000000000000000000
............................................................CGAGCAGAGAAGTATTATC.........................................................................................................1917.0070000000000000000000010000000120003000000000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTC...........................................................................................................1817.0070000000000000000000000000000041101000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATTT.........................................................2417.0070000000301000000000020000000000001000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGC.........................................................2517.0070000000000000000000000000000121200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTTC...........................................................2217.0070000000000000000000000000000101201000002000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATCC........................................................................................................1917.0070000010001000000000010000000001101000001000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATTT........................................................................................................1916.0060000000300000000000000000000010100000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTT........................................................2516.0060000001000000000000000000000310100000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAA........................................................2516.0060000000001000000000000000000000000000000000000000000000000000001013000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGG.........................................................2415.0050000000000000000000000000000200300000000000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACC.........................................................................................................2215.0050000010000000000000020000000010000000001000000000000000000000000000000000000000
...........................................................GCGAGCAGAGAAGTATTATC.........................................................................................................2015.0050000000000000000000010000000200200000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTA...........................................................................................................1915.0050020000000000000000000000000101100000000000000000000000000000000000000000000000
...............................................................................TGCGTGAATC----TGATATCAAA.................................................................................2014.0040000000000000000000020000000010000000000000000000000000000000100000000000000000
............................................................................................................CTTTTTTGGTTCGCTATGT.........................................................1914.0040000000100000000000010000000000101000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTAA...........................................................2314.0040000000000000000000000000000300100000000000000000000000000000000000000000000000
..........................................................AGCGAGCAGAGAAGTATTATC.........................................................................................................2114.0040000000000000000000010000000100200000000000000000000000000000000000000000000000
............................................................................................................CTTTTTTGGTTCGCTATC..........................................................1814.0040000010000000000000010000000200000000000000000000000000000000000000000000000000
.............................................................GAGCAGAGAAGTATTATT.........................................................................................................1814.0040000010100000000000000000000100100000000000000000000000000000000000000000000000
......................................................................................................ATAAGACTTTTTTGGTTCGCTATGTCT.......................................................2714.0040000000000000000000000000000001200000001000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGAAA.......................................................2614.0040000000000000000000000000000001000000000000000000000000000000000012000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATCCC........................................................2514.0040000000000000000000000000000100201000000000000000000000000000000000000000000000
.......................................................................................................TAAGACTTTTTTGGTTCGCTATGTCT.......................................................2613.0030000000000000000000000000000100000000002000000000000000000000000000000000000000
.........................................................GAGCGAGCAGAGAAGTATTACCC........................................................................................................2313.0030000000000000000000010000000000200000000000000000000000000000000000000000000000
droMoj3
--------------------------------------------GGGCATTCCCTCTGAGCGAGCAGAGAAGTATT-TTTGCGTGCATC----TGATATCAAATAAAACTTTTTTGGTT-GCTGCGAGGTATTGT-------------------------------------------------SizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
.........................................................GAGCGAGCAGAGAAGTATT-A..........................................................................................................201112.0011200120109
.........................................................GAGCGAGCAGAGAAGTATT-...........................................................................................................19136.00360001035
.........................................................GAGCGAGCAGAGAAGTATT-T..........................................................................................................20113.00130000013
.........................................................GAGCGAGCAGAGAAGTATT-AA.........................................................................................................21112.00120010011
.........................................................GAGCGAGCAGAGAAGTATT-C..........................................................................................................2018.008100007
.........................................................GAGCGAGCAGAGAAGTATT-TT.........................................................................................................2112.002000002
.........................................................GAGCGAGCAGAGAAGTATC-...........................................................................................................1911.001000001
.........................................................GAGCGAGCAGAGAAGTATT-TC.........................................................................................................2111.001000001

Generated: 10/20/2015 at 07:49 PM