ID:

dan_708

 Coordinate:

scaffold_12916:13860735-13860815 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

Flybase annnotation

CDS [Dana\GF15738-cds]; exon [dana_GLEANR_16502:1]; CDS [Dana\GF15738-cds]; exon [dana_GLEANR_16502:2]; intron [Dana\GF15738-in]

No Repeatable elements found

Sense Strand Reads

##################################################---------------------------------------------------------------------------------##################################################
GCTGAAGATAAGATCCCGAAGCACCTCAAAGTCCCGTAATAAAGGAAAGAGTAGGTCTAGATCTAGGTCTAAGTCAAGGTCAAGGTCTAGGTCTAAAAAGAAAAAAAAGCCCAAAAGAAAGAAATCCAAAGGTCGTCGCAAGAAGAAGGATGTCGGCCAAGGGATAAGTGGATTTGAAACG
**************************************************.(((((((((((((.(((((......))))).)))))))))))))....................................************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 V055
head
 M044
female body
 V039
embryo
.......................................................................................................AAAAAGCCCAAAAGAAAG............................................................ 18 0 1 1.00 1 1 0 0 0
.....AGATAAGATCCCGCACCAC............................................................................................................................................................. 19 2 1 1.00 1 1 0 0 0
..................................................................................................AGAAAAAAAAACCCAAAAGAA.............................................................. 21 1 2 0.50 1 1 0 0 0
.................................................AATAGGTCTAGATCCAGG.................................................................................................................. 18 2 2 0.50 1 0 0 1 0
...............................................................................................AGAAGAAAAAAAAGACCAAAAGA............................................................... 23 2 2 0.50 1 1 0 0 0
...................................................................................................GAACAACCAGCCCAAAAGAAAGA........................................................... 23 3 2 0.50 1 0 0 0 1
..............................................................................................AAAAAGAAGAGCAAGCCCAAAAGA............................................................... 24 3 2 0.50 1 1 0 0 0
......................................................................................................AAAAAACCCCAAAAGAAAGA........................................................... 20 1 2 0.50 1 1 0 0 0
................................................................................................................................................TAAGGATGTCGGGCAAGG................... 18 2 4 0.25 1 0 1 0 0
...GATGATAAGATACCGACGCA.............................................................................................................................................................. 20 3 4 0.25 1 0 1 0 0
.....................................................................................................AAAAAAAGACCACAAGAAAGA........................................................... 21 2 4 0.25 1 1 0 0 0
....................................................................................................AAAAAAAAGCGCAAAAGAA.............................................................. 19 1 5 0.20 1 1 0 0 0
...................................................................................................GAAAAAAAAACCCAAAAGAA.............................................................. 20 1 5 0.20 1 1 0 0 0
...............................................................................................AAAAGAAAAGCTAGCCCAAAAGA............................................................... 23 3 5 0.20 1 1 0 0 0
...................................................................................................GAAAAAAAAGGCCCAAAGAAA............................................................. 21 2 7 0.14 1 1 0 0 0
....................................................................................................AAAAAAAAGACCCAAAGAAGGAAA......................................................... 24 3 10 0.10 1 1 0 0 0
.............................................................................................TAAAAAGAGAAAGAAGCCCAC................................................................... 21 3 11 0.09 1 1 0 0 0
......................................................................................................AAATAAACCCAAAAGAAAGAA.......................................................... 21 2 11 0.09 1 1 0 0 0
....................................................................................................AAAAAAAACCCCAAAAGAA.............................................................. 19 1 13 0.08 1 1 0 0 0
.......................................................................................................AAAAAGCACTAAAGAAAGA........................................................... 19 2 17 0.06 1 1 0 0 0
...............................................................................................AAAAGAAAAAAAAGCCGA.................................................................... 18 1 20 0.05 1 1 0 0 0
....................................................................................................AAAAAAAAGCCGAAAAGAA.............................................................. 19 1 20 0.05 1 1 0 0 0
.................................................................................................AAGACAAAAAAGCCCAGAA................................................................. 19 2 20 0.05 1 1 0 0 0
........................................................................................................AAAAGCCCAGAGGAAAGA........................................................... 18 2 20 0.05 1 1 0 0 0
....................................................................................................AAAAAAAAACCCAAAAGAA.............................................................. 19 1 20 0.05 1 1 0 0 0
...................................................................................GATCAAGGTGTAAAAAGAAA.............................................................................. 20 3 20 0.05 1 1 0 0 0
........................................AAAGGGGAGAGTAGGTC............................................................................................................................ 17 2 20 0.05 1 0 1 0 0
...................................................................................................GAAAAAAACACCCAAAAGAA.............................................................. 20 2 20 0.05 1 1 0 0 0
............................................................................................CTAAAAAGAAAAAAAACAACAAAAGA............................................................... 26 3 20 0.05 1 1 0 0 0
...............................................................................................................................AGAGGTCGTCGCGAGATG.................................... 18 3 20 0.05 1 0 1 0 0

Anti-sense strand reads

CGACTTCTATTCTAGGGCTTCGTGGAGTTTCAGGGCATTATTTCCTTTCTCATCCAGATCTAGATCCAGATTCAGTTCCAGTTCCAGATCCAGATTTTTCTTTTTTTTCGGGTTTTCTTTCTTTAGGTTTCCAGCAGCGTTCTTCTTCCTACAGCCGGTTCCCTATTCACCTAAACTTTGC
**************************************************.(((((((((((((.(((((......))))).)))))))))))))....................................************************************************** 		Read size # Mismatch Hit Count Total Norm Total V055
head
 M044
female body
................GCTTCGTGGGGCTTCGGGGCA................................................................................................................................................ 21 3 1 1.00 1 1 0
..............................................................................................................GGTTGTCGTTCTTTAGGTTTCT................................................. 22 3 7 0.14 1 1 0
................................................................................................................TTTTCGGTCTTTAAGTTTCCA................................................ 21 3 13 0.08 1 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_12916:13860685-13860865 + dan_708 GCTGAAGA--TAA-----GATCCCGAAGCACCTCAAA-G--T--------------------------------------------------------------------------------------------------------------------------------------------------CCCGTAATAAAGGA---AAGAGTAGGTCTAGATCTAGGTCTAAGTCAAGGTCAAGGTCTAGGTCTAAAAAGA---------AAAAAAAGCCCAAAAGAAAGAAATCCAAAGGTCGTCGCAAGAAGAAG------GATGTCGGCCAAGGGATAAGTGGATTTGAAACG
droBip1 scf7180000396535:824403-824586 + GAACAAGA-ATGTGAAATCATCCCGTAGCACTTTAAG-G--T--------------------------------------------------------------------------------------------------------------------------------------------------CTAG---------------CAGAAGGTCAAGATCAAGTTCGAGGTCAAGGTCGAGGTCTAGGTCCAAAAAGAATTCTAACAAAAAAAAGCCCAAGAAAAAGAAGTCAAAAGGTCGCCCCAAGAACAAACCCCAAGATACTGGCAAAG------GTGAAATTCCAAAG
droFic1 scf7180000453838:229965-230092 + GGACATAA-TTA------T-----------------AAAACATAAGCGTAAAAGGAGTA-------------------------------------GG--ACAGCTCAAAGAAGTAGTTC-CCGAAGTAGAAAATCCATCAAAAAAAGTTA------------------ACA---CCAAAGGAACCAAGTATCCATGAGGAAGAA--------------------------------------------------------------------------------------------------------------------------------------------ATT--CATTT
droEle1 scf7180000491186:3085132-3085173 + AGGTCA----------------------------------------------------------------------------------------------------------------TC-TCAGGGTCGAAAA--------------TTA------------------CCA-------------------------------------------------------------------------------------------------------------------------------------------------------------GCAAAAG---------GAC--GAAAA
droEug1 scf7180000409554:4888583-4888714 - GAGTCTAAG-G------TCATATTAGAGAACCCCAAG-G--GTAAAGGGGGTAGAAGCA---------------------------------------------------------GTTC-CCAAAATCAAATA--------------TCGCCAATGAAACAAAAGGAAGTCGTAGCAAGTGAAAAGGACATCATCGAGGATTCACCTCATT---------------------------------------------------------------------------------------------------------------------------------------------TG
droSec2 scaffold_3:5467604-5467681 + GCGGAAAT--TAA-----CA----------------------------TGAAACAACAAA-AATCG----------------------------------------------------------------------------------------------------------------------AAGTCCCTTATCGAGGAGAAACAGAGTTTGCCCACTTCTA-------------------------------------------------------------------------------------------------------------------------GTT--TCAAG
droYak3 2L:12711929-12712048 + AAACATTAA-AC------CA-----------------CAATCTAAAAGTACTAGGAGTA-------------------------------------GTTACAAGAGCCAAAATGTACTAAAGCAAAATCGAAAATC--------------------------------AATTGAAAAATCTACAAAGTCCATTGAAGAAAAGCCATTGAATT----------------------------------------------------------------------------------------------------------------------------------------------T
dp5 4_group3:153538-153680 - GCGAAACGGATAAGAAGCCGCC-----------CAAAAGACATACGCGTAAAACGGCCAGCCTTCTGAGTCACTCGCACAAGAGAAAGAGTCGTAAGTCGTCCAGCACCAGGCATACAAAGAAAAAGTCGCAGATA--------------------------------ACCAAAGAGG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------ATT--CAAAG
droPer2 scaffold_1:1627475-1627611 - GCGAAACGGATAAGAAGCCTCC-----------CAAAAGACATACGCGTAAAACGGCCAGCCTTTTGAGTC------ACAAGAGAAAGACTCGTAAGTCGTCCAGGACCAGGCATACAAAGAAAAAGTCGCAGATA--------------------------------ACCAAAGAGG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------ATT--CAAAG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
GCTGAAGA--TAA-----GATCCCGAAGCACCTCAAA-G--T--------------------------------------------------------------------------------------------------------------------------------------------------CCCGTAATAAAGGA---AAGAGTAGGTCTAGATCTAGGTCTAAGTCAAGGTCAAGGTCTAGGTCTAAAAAGA---------AAAAAAAGCCCAAAAGAAAGAAATCCAAAGGTCGTCGCAAGAAGAAG------GATGTCGGCCAAGGGATAAGTGGATTTGAAACGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
...............................................................................................................................................................................................................................................................................AAAAAGCCCAAAAGAAAG..................................................................1811.001010000
droBip1
GAACAAGA-ATGTGAAATCATCCCGTAGCACTTTAAG-G--T--------------------------------------------------------------------------------------------------------------------------------------------------CTAG---------------CAGAAGGTCAAGATCAAGTTCGAGGTCAAGGTCGAGGTCTAGGTCCAAAAAGAATTCTAACAAAAAAAAGCCCAAGAAAAAGAAGTCAAAAGGTCGCCCCAAGAACAAACCCCAAGATACTGGCAAAG------GTGAAATTCCAAAGSizeHit CountTotal NormTotal
No Reads
droFic1
GGACATAA-TTA------T-----------------AAAACATAAGCGTAAAAGGAGTA-------------------------------------GG--ACAGCTCAAAGAAGTAGTTC-CCGAAGTAGAAAATCCATCAAAAAAAGTTA------------------ACA---CCAAAGGAACCAAGTATCCATGAGGAAGAA--------------------------------------------------------------------------------------------------------------------------------------------ATT--CATTTSizeHit CountTotal NormTotal
No Reads
droEle1
AGGTCA----------------------------------------------------------------------------------------------------------------TC-TCAGGGTCGAAAA--------------TTA------------------CCA-------------------------------------------------------------------------------------------------------------------------------------------------------------GCAAAAG---------GAC--GAAAASizeHit CountTotal NormTotal
No Reads
droEug1
GAGTCTAAG-G------TCATATTAGAGAACCCCAAG-G--GTAAAGGGGGTAGAAGCA---------------------------------------------------------GTTC-CCAAAATCAAATA--------------TCGCCAATGAAACAAAAGGAAGTCGTAGCAAGTGAAAAGGACATCATCGAGGATTCACCTCATT---------------------------------------------------------------------------------------------------------------------------------------------TGSizeHit CountTotal NormTotal
No Reads
droSec2
GCGGAAAT--TAA-----CA----------------------------TGAAACAACAAA-AATCG----------------------------------------------------------------------------------------------------------------------AAGTCCCTTATCGAGGAGAAACAGAGTTTGCCCACTTCTA-------------------------------------------------------------------------------------------------------------------------GTT--TCAAGSizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
AAACATTAA-AC------CA-----------------CAATCTAAAAGTACTAGGAGTA-------------------------------------GTTACAAGAGCCAAAATGTACTAAAGCAAAATCGAAAATC--------------------------------AATTGAAAAATCTACAAAGTCCATTGAAGAAAAGCCATTGAATT----------------------------------------------------------------------------------------------------------------------------------------------TSizeHit CountTotal NormTotalM026
Head		M043
Female-body		M056
Embryo		V046
Embryo		V052
Head		V058
Head		V120
Male-body		SRR1275488
Male larvae		SRR1275486
Male prepupae		SRR1275484
Male prepupae		GSM1528802
follicle cells
No Reads
dp5
GCGAAACGGATAAGAAGCCGCC-----------CAAAAGACATACGCGTAAAACGGCCAGCCTTCTGAGTCACTCGCACAAGAGAAAGAGTCGTAAGTCGTCCAGCACCAGGCATACAAAGAAAAAGTCGCAGATA--------------------------------ACCAAAGAGG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------ATT--CAAAGSizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
No Reads
droPer2
GCGAAACGGATAAGAAGCCTCC-----------CAAAAGACATACGCGTAAAACGGCCAGCCTTTTGAGTC------ACAAGAGAAAGACTCGTAAGTCGTCCAGGACCAGGCATACAAAGAAAAAGTCGCAGATA--------------------------------ACCAAAGAGG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------ATT--CAAAGSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads

Generated: 05/17/2015 at 10:56 PM