ID:

dwi_3688

 Coordinate:

scf2_1100000004954:569397-569547 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-20.7 -20.0 -20.0

Flybase annnotation

CDS [Dwil\GK23122-cds]; exon [dwil_GLEANR_6417:2]; intron [Dwil\GK23122-in]

Repeatable elements

NameClassFamilyStrand
Gypsy-27_DWil-I-intLTRGypsy+

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
AAAATATGTCAATAGTATTAAGATTCCAAACGCAATTATTGTTCCATTACTAATAATGTCCTCGAGTCAAAATGTGTTCCAGGTTGAGCAAGTCCAATTCACAGAGTAGTCGACACCGACGAGTAACCCTGTCTCTCACGGCTCGCCGGAACTACCATCACCAAATCATGCGAGCTGATGTCCAAGTACTCATCTATCCAGTTAGGACCAGGCGATGCAGCTCATACCAAGGCCAAATCCAACCAACTGGT
**************************************************************************.(((((.(((.((((..((.......((((.((.((((....)))).....)).)))).....)).))))))))))))*************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V118
embryo
 M020
head
..........................................................................................................................................................................................TACTCATCTATCCAGTTAGGACCAGG....................................... 26 0 3 1.67 5 2 3 0
..........................................................................TGTTCCAGGTTGAGCAAGTCCAATTCAC..................................................................................................................................................... 28 0 1 1.00 1 1 0 0
.................................................................................................TTCACAGAGTAGTCGACACCGACGAGTA.............................................................................................................................. 28 0 1 1.00 1 0 1 0
........................................................................TGTGTTCCAGGTTGAGCAAGTCCAATA........................................................................................................................................................ 27 1 1 1.00 1 0 1 0
...................................................................................................CACAGAGTAGTCGACACCGACGAGTA.............................................................................................................................. 26 0 1 1.00 1 0 1 0
.............................................................TCGAGTCAAAATGTGTTCCAGGTTG..................................................................................................................................................................... 25 0 1 1.00 1 1 0 0
....................TGATTCCAAACGCAATTCTTG.................................................................................................................................................................................................................. 21 2 3 1.00 3 0 0 3
...........................................................................................................................TAACCCTGTCTCTCACGGCTCGCCGGAAC................................................................................................... 29 0 1 1.00 1 0 1 0
..........................................................................................................................................................................................TACTCATCTATCCAGTTAGGACC.......................................... 23 0 3 0.67 2 2 0 0
.....................................................................................................................................................................................................CCAGTTAGGACCAGGCGATGCAGCTC............................ 26 0 2 0.50 1 1 0 0
..................................................................................................................................................................................TGTCCAAGTACTCATCTATCCAGT................................................. 24 0 2 0.50 1 0 1 0
........................................................................................................................................................................TGCGAGCTGATGTCCAAGTACTCATC......................................................... 26 0 2 0.50 1 0 1 0
..........................................................................................................................................................................................................TAGGACCAGGCGATGCAGCTCATACC....................... 26 0 2 0.50 1 1 0 0
..............................................................................................................................................................................CTGATGTCCAAGTACTCATCTATCCAGT................................................. 28 0 2 0.50 1 1 0 0
..................................................................................................................................................................................................TATCCAGTTAGGACCAGGCGATGCA................................ 25 0 2 0.50 1 1 0 0
.........................................................................................................................................................................................................TTAGGACCAGGCGATGCAGCT............................. 21 0 2 0.50 1 1 0 0
....................................................................................................................................CTCTCACGGCTCGCCGGAACTA................................................................................................. 22 0 2 0.50 1 1 0 0
...............................................................................................................................................................................TGATGTCCAAGTACTCATCTATCCAGT................................................. 27 0 2 0.50 1 0 1 0
.......................................................................................................................................................................................AAGTACTCATCTATCCAGTTAGGACCAG........................................ 28 0 3 0.33 1 0 1 0
.....................................................................................................................................................................................CCAAGTACTCAGCTATCCAGTTAGGAC........................................... 27 1 3 0.33 1 1 0 0
....................................................................................................................................................................................TCCAAGTACTCATCTATCCAGT................................................. 22 0 3 0.33 1 0 1 0
..................................................................................................................................................................................................TATCCAGTTAGGACCAGGCG..................................... 20 0 3 0.33 1 1 0 0
.......................TTCCAAACGCAATTCTTG.................................................................................................................................................................................................................. 18 1 3 0.33 1 0 1 0
..............................................................................................................................................................................................CATCTATCCAGTTAGGACCAGGC...................................... 23 0 3 0.33 1 1 0 0
..............................................................................................................................................................................................CATCTATCCAGTTAGGACCAGGCG..................................... 24 0 3 0.33 1 1 0 0
......................................................................................................................................................................................CAAGTACTCATCTATCCAGTTAGG............................................. 24 0 3 0.33 1 1 0 0
...........................................................................................................................................................................................................................ACTCATACCAAGGCCAAATCCAAC........ 24 1 5 0.20 1 1 0 0
...........................................................CTTCGAGTCAAAATGTGTTCCAGA........................................................................................................................................................................ 24 2 6 0.17 1 1 0 0
...................................................................................................CGCATAATAGTCGACACCG..................................................................................................................................... 19 3 16 0.06 1 1 0 0
...........................................................................................................................TAATCCTGTCTCTCATTGC............................................................................................................. 19 3 20 0.05 1 0 1 0
.............................................................................................................................................................................GATGATGTGCACGTACTCA........................................................... 19 3 20 0.05 1 1 0 0

Anti-sense strand reads

TTTTATACAGTTATCATAATTCTAAGGTTTGCGTTAATAACAAGGTAATGATTATTACAGGAGCTCAGTTTTACACAAGGTCCAACTCGTTCAGGTTAAGTGTCTCATCAGCTGTGGCTGCTCATTGGGACAGAGAGTGCCGAGCGGCCTTGATGGTAGTGGTTTAGTACGCTCGACTACAGGTTCATGAGTAGATAGGTCAATCCTGGTCCGCTACGTCGAGTATGGTTCCGGTTTAGGTTGGTTGACCA
***************************************************************************************************.(((((.(((.((((..((.......((((.((.((((....)))).....)).)))).....)).))))))))))))************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V118
embryo
 V117
male body
......ACAGTTATCATAATTCTAAGGTTTGCGT......................................................................................................................................................................................................................... 28 0 1 4.00 4 3 1 0
............................................................................................................................................................................TCGACTACAGGTTCATGAGTAGATAGGT................................................... 28 0 2 3.00 6 6 0 0
.............................................................................................................................................................................CGACTACAGGTTCATGAGTAGATAGGT................................................... 27 0 2 3.00 6 5 1 0
.................................................................................................................................................................................TACAGGTTCATGAGTAGATAGGTCAAT............................................... 27 0 2 1.50 3 1 2 0
...................................................................................................................................................................................CAGGTTCATGAGTAGATAGGTCAAT............................................... 25 0 2 1.00 2 0 2 0
...........TATCATAATTCTAAGGTTTGCGTTT....................................................................................................................................................................................................................... 25 1 1 1.00 1 1 0 0
.................................................................................................................................................................................................................TCCGCTACGTCGAGTATGGTTCCGGT................ 26 0 1 1.00 1 1 0 0
........................................................................................GTTCAGGTTAAGTGTCTCATCAGCTGT........................................................................................................................................ 27 0 1 1.00 1 1 0 0
........................................................................................................................................................................ACGCTCGACTACAGGTTCATGAGTAGAT....................................................... 28 0 2 1.00 2 2 0 0
...............................................................................................................................................GCGGCCTTGATGGTAGTGGTTTAGT................................................................................... 25 0 2 1.00 2 2 0 0
..................................................................................................................................................................................................ATAGGTCAATTCTTGTCCGG..................................... 20 3 6 1.00 6 6 0 0
.....................................................................................................................................................................AGTACGCTCGACTACAGGTTCATGAG............................................................ 26 0 2 1.00 2 2 0 0
............................................................................................................CAGCTGTGGCTGCTCATTGGGACA....................................................................................................................... 24 0 1 1.00 1 1 0 0
..................................................................................................................................................................................ACAGGTTCATGAGTAGATAGGTCAAT............................................... 26 0 2 1.00 2 1 1 0
.....................................................................TTTACACAAGGTCCAACTCGTTCAGG............................................................................................................................................................ 26 0 1 1.00 1 1 0 0
.........................................................................................................................................................................CGCTCGACTACAGGTTCATGAGTAGAT....................................................... 27 0 2 1.00 2 2 0 0
.........................................................CAGGAGCTCAGTTTTACACAAGGT.......................................................................................................................................................................... 24 0 1 1.00 1 1 0 0
.......CAGTTATCATAATTCTAAGGTTTGCGT......................................................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0
...................................................................................................................................................................TTAGTACGCTCGACTACAGGTTCATGAG............................................................ 28 0 1 1.00 1 1 0 0
.........................GGTTTGCGTTAATAACAAGGTAATGAT....................................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0
..........................................................................ACAAGGTCCAACTCGTTCAGGTTAAG....................................................................................................................................................... 26 0 1 1.00 1 1 0 0
..................................................................................................................................................................................................ATAGGTCAATTCTTGTCCG...................................... 19 2 3 0.67 2 2 0 0
........................................................................................................................................AAGCCGAGCGGCCTTGATGGTAGTGGT........................................................................................ 27 2 2 0.50 1 0 1 0
...........................................GGTAATGATTATTACAGAAGCTCAGTT..................................................................................................................................................................................... 27 1 4 0.50 2 1 1 0
............................................................................................................................................................................CTGACTACAGGTTCATGAGTAGATAGGT................................................... 28 2 2 0.50 1 0 1 0
.................................................................................................................................................................................TACAGGTTCATGAGTAGATAGGTCAA................................................ 26 0 2 0.50 1 0 1 0
............................................................................................................................................CGAGCGGCCTTGATGGTAGTGGT........................................................................................ 23 0 2 0.50 1 0 1 0
................................................................................................................................................................................CTACAGGTTCATGAGTAGATAGG.................................................... 23 0 2 0.50 1 1 0 0
.............................................................................................................................................................................CGACTACAGGTTCATGAGTAGATAGTT................................................... 27 1 2 0.50 1 0 1 0
................................................................................................................................................................................................AGATAGGTCAATCCTGGTCCGCTACGT................................ 27 0 2 0.50 1 0 1 0
..........................................................................................................................................GCCGAGAGGCCTTGATGGTAGTGGT........................................................................................ 25 1 2 0.50 1 0 1 0
.............................................................................................................................................GAGCGGCCTTGATGGTAGTGGTTTAGT................................................................................... 27 0 2 0.50 1 1 0 0
............................................................................................................................................................................TCGACTACAGGTTCATGAGTAGA........................................................ 23 0 2 0.50 1 0 1 0
...........................................................................................................................................................................CTCGACTACAGGTTCATGAGTAGAT....................................................... 25 0 2 0.50 1 0 1 0
..........................................................................................................................................................................................................ATCCTGGTCCGCTACGTCGAGTAT......................... 24 0 2 0.50 1 0 1 0
..............................................................................................................................................................................GACTACAGGTTCATGAGTAGAT....................................................... 22 0 2 0.50 1 1 0 0
.....................................................................................................................................................................AGTACGCTCGACTACAGGTTCATGAGT........................................................... 27 0 2 0.50 1 1 0 0
.......................................................................................................................................................................................................TCAATCCTGGTCCGCTACGTCGAGT........................... 25 0 2 0.50 1 0 1 0
.........................................................................................................................................................................................................................GTCGAGTATGGTTCCGGTTTAGG........... 23 0 2 0.50 1 1 0 0
................................................................................................................................................CGGCCTTGATGGTAGTGGTTTAGTACGC............................................................................... 28 0 2 0.50 1 0 0 1
........................................................................................................................................................................................................CAATCCTGGTCCGCTACGTCGAGT........................... 24 0 2 0.50 1 0 1 0
...............................................................................................................................................................................ACTACAGGTTCATGAGTAGATAGGT................................................... 25 0 2 0.50 1 1 0 0
................................................................................................................................................................................CTACAGGTTCATGAGTAGATAGGTCAAT............................................... 28 0 2 0.50 1 1 0 0
.............................................................................................................................................GAGCGGCCTTGCTGGTAGTGGT........................................................................................ 22 1 2 0.50 1 0 1 0
............................................................................................................................................................................TCGACTACAGGTTCATGAGTAGAT....................................................... 24 0 2 0.50 1 1 0 0
....................................................................................................................................................CTTGATGGTAGTGGTTTAGTACGC............................................................................... 24 0 2 0.50 1 0 1 0
............................................................................................................................................CGAGCGGCCTTGATGGTAGTGGTT....................................................................................... 24 0 2 0.50 1 1 0 0
............................TTGCGTTAATAACAAAGTAATGATTAT.................................................................................................................................................................................................... 27 1 3 0.33 1 1 0 0
........................................................................................................................................................................................TCATGAGTAGATAGGTCAATCCTGGT......................................... 26 0 3 0.33 1 0 1 0
...................................................................................................................................................................TTAGTACGCTCGACTACAGGTTCAT............................................................... 25 0 3 0.33 1 0 1 0
.....................................................................................................................................................................................GGTTCATGAGTAGATAGGTCAATCCT............................................ 26 0 3 0.33 1 1 0 0
...............................................................................................................................................................................................CAGATAGGTCAATTCTTGTCCG...................................... 22 3 3 0.33 1 1 0 0
....................................................................................................................................................................................AGGTTCATGAGTAGATAGGTCAAT............................................... 24 0 3 0.33 1 1 0 0
....................................................................................................................................................................TAGTACGCTCGACTACAGGTTCATGA............................................................. 26 0 4 0.25 1 1 0 0
......................................................................................................................................................TGATGGTAGTGGTTTAGTACGCT.............................................................................. 23 0 4 0.25 1 1 0 0
..............................................AATGATTATTACAGAAGCTCAGTTTT................................................................................................................................................................................... 26 1 5 0.20 1 1 0 0
..............................................................................................................................................................................................................................GTATGGTTCCGGTTTAGGTTGGT...... 23 0 5 0.20 1 1 0 0
.......................................................TACAGAAGCTCAGTTTTACACAAGGTCT........................................................................................................................................................................ 28 2 5 0.20 1 1 0 0
.......................................................TACAGAAGCTCAGTTTTACACAAGGTCTC....................................................................................................................................................................... 29 3 5 0.20 1 1 0 0
............................................................................................................................................................................................................................GAGTATGGTTCCGGTTTAGGTTGGTT..... 26 0 5 0.20 1 1 0 0
.....................................................................................................TTCTCACCAGCTGTGGCTGCTCAT.............................................................................................................................. 24 2 6 0.17 1 1 0 0
.........................................................................................................................................................................CGCTCGACTACAGGTTCAT............................................................... 19 0 8 0.13 1 1 0 0
.......................................................................................................................................ATTGGCGAGCGGCCTTTA.................................................................................................. 18 3 20 0.05 1 1 0 0
..........................................................................................................................CATTAGGACAGAGAGTAAC.............................................................................................................. 19 3 20 0.05 1 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droWil2 scf2_1100000004954:569347-569597 + dwi_3688 AAAATATGTCAATAGTATTAAGATTCCAAACGCAATTATTGTTCCATTACTAATAATGTCCTCGAGTCAAAATGTGTTCCAGGTTGAGCAAGTCCAATTCACAGAGTAGTCGACACCGACGAGTAACCCTGTCTCTCACGGCTCGCCGGAACTACCATCACCAAATCATGCGAGCTGATGTCCAAGTACTCATCTATCCAGTTAGGACCAGGCGATGCAGCTCATACCAAGGCCAAATCCAACCAACTGGT
droVir3 scaffold_12734:202569-202620 + A--------------------GGTACCAAATGCAGCTATTGTTCAGTCGCTGATTATAGTCTCG---CAAACTGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droWil2
AAAATATGTCAATAGTATTAAGATTCCAAACGCAATTATTGTTCCATTACTAATAATGTCCTCGAGTCAAAATGTGTTCCAGGTTGAGCAAGTCCAATTCACAGAGTAGTCGACACCGACGAGTAACCCTGTCTCTCACGGCTCGCCGGAACTACCATCACCAAATCATGCGAGCTGATGTCCAAGTACTCATCTATCCAGTTAGGACCAGGCGATGCAGCTCATACCAAGGCCAAATCCAACCAACTGGTSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
..........................................................................................................................................................................................TACTCATCTATCCAGTTAGGACCAGG.......................................2631.67502030
..........................................................................TGTTCCAGGTTGAGCAAGTCCAATTCAC.....................................................................................................................................................2811.00101000
.................................................................................................TTCACAGAGTAGTCGACACCGACGAGTA..............................................................................................................................2811.00100010
........................................................................TGTGTTCCAGGTTGAGCAAGTCCAATA........................................................................................................................................................2711.00100010
...................................................................................................CACAGAGTAGTCGACACCGACGAGTA..............................................................................................................................2611.00100010
.............................................................TCGAGTCAAAATGTGTTCCAGGTTG.....................................................................................................................................................................2511.00101000
...........................................................................................................................TAACCCTGTCTCTCACGGCTCGCCGGAAC...................................................................................................2911.00100010
..........................................................................................................................................................................................TACTCATCTATCCAGTTAGGACC..........................................2330.67202000
.....................................................................................................................................................................................................CCAGTTAGGACCAGGCGATGCAGCTC............................2620.50101000
..................................................................................................................................................................................TGTCCAAGTACTCATCTATCCAGT.................................................2420.50100010
........................................................................................................................................................................TGCGAGCTGATGTCCAAGTACTCATC.........................................................2620.50100010
..........................................................................................................................................................................................................TAGGACCAGGCGATGCAGCTCATACC.......................2620.50101000
..............................................................................................................................................................................CTGATGTCCAAGTACTCATCTATCCAGT.................................................2820.50101000
..................................................................................................................................................................................................TATCCAGTTAGGACCAGGCGATGCA................................2520.50101000
.........................................................................................................................................................................................................TTAGGACCAGGCGATGCAGCT.............................2120.50101000
....................................................................................................................................CTCTCACGGCTCGCCGGAACTA.................................................................................................2220.50101000
...............................................................................................................................................................................TGATGTCCAAGTACTCATCTATCCAGT.................................................2720.50100010
.......................................................................................................................................................................................AAGTACTCATCTATCCAGTTAGGACCAG........................................2830.33100010
....................................................................................................................................................................................TCCAAGTACTCATCTATCCAGT.................................................2230.33100010
..................................................................................................................................................................................................TATCCAGTTAGGACCAGGCG.....................................2030.33101000
..............................................................................................................................................................................................CATCTATCCAGTTAGGACCAGGC......................................2330.33101000
..............................................................................................................................................................................................CATCTATCCAGTTAGGACCAGGCG.....................................2430.33101000
......................................................................................................................................................................................CAAGTACTCATCTATCCAGTTAGG.............................................2430.33101000
droVir3
A--------------------GGTACCAAATGCAGCTATTGTTCAGTCGCTGATTATAGTCTCG---CAAACTGT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------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
..........................................TCAGTCGCTGATTATAGTCTCG---CAAAC...................................................................................................................................................................................2740.502101000000000000000000000000000000000000000000000000000000000000
............................AATGCAGCTATTGTTCAGTCGC.........................................................................................................................................................................................................2250.201000000000000000000000000001000000000000000000000000000000000000
............................AATGCAGCTATTGTTCAGTCGCC........................................................................................................................................................................................................2350.201000000000000000000000000000100000000000000000000000000000000000

Generated: 05/18/2015 at 07:56 AM