ID:

dsi_112

 Coordinate:

3R:4326370-4326425 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-29.2 -29.1 -29.1

Flybase annnotation

intergenic

No Repeatable elements found

Sense Strand Reads

CAGCTTAGCTCCACGGACGCCATAAGTATTGGCCCATGATCATTCCGGCTGTCCAATGGAATCTGTGGCATTTGATTCTCCACATGCCGTTGATTGTTTGGACGGTTCGATAAGTCATGGAGATCTTTATCGCTGTAGGCGATAAACGTACGGCAT
***********************************(((((...((.((((((((((...((((..((((((.((......)).))))))..))))..)))))))))).))...)))))...*********************************** 		Read size # Mismatch Hit Count Total Norm Total M023
head
 M024
male body
 M025
embryo
 SRR553485
Ovary		 O001
Testis
 SRR553486
Ovary		 SRR553487
Ovary		 SRR618934
Ovary
....................................................................................TGCCGTTGATTGTTTGGACGG................................................... 21 0 1 25.00 25 20 4 1 0 0 0 0 0
....................................................................................TGCCGTTGATTGTTTGGACGGTT................................................. 23 0 1 20.00 20 15 2 2 0 0 1 0 0
....................................................................................TGCCGTTGATTGTTTGGACG.................................................... 20 0 1 5.00 5 1 4 0 0 0 0 0 0
..............................................................................................................TAAGTCATGGAGATCTTTATCGCTGTA................... 27 0 1 2.00 2 0 0 0 2 0 0 0 0
......................TAAGTATTGGCCCATGATCATTCCGGC........................................................................................................... 27 0 1 2.00 2 0 0 0 1 0 0 1 0
..............................................................................................TGTTTGGACGGTTCGATAAGTCATGGAGA................................. 29 0 1 1.00 1 0 0 0 1 0 0 0 0
....................................................................................................GACGGTTCGATAAGTCATG..................................... 19 0 1 1.00 1 0 0 0 0 0 0 0 1
..................................................................................................................TCATGGAGATCTTTATCGCTG..................... 21 0 1 1.00 1 1 0 0 0 0 0 0 0
.................................CCATGATCATTCCGGCTGTCCAAT................................................................................................... 24 0 1 1.00 1 0 0 0 0 1 0 0 0
...................................................................................ATGCCGTTGATTGTTTGGAC..................................................... 20 0 1 1.00 1 0 0 1 0 0 0 0 0
.............................................CGACTGTCCAATGGAATCTGTGGC....................................................................................... 24 1 1 1.00 1 0 0 0 0 0 1 0 0
..............................................................................TCCACATGCCGTTGATTGTTTGGACGGTT................................................. 29 0 1 1.00 1 0 0 1 0 0 0 0 0
................................................CTGTCCAATGGAATCTGTGGCA...................................................................................... 22 0 1 1.00 1 0 0 0 0 0 1 0 0
.....................................................................................................................TGGAGATCTTTATCG........................ 15 0 1 1.00 1 0 0 0 0 0 0 1 0
.....................................................................................GCCGTTGATTGTTTGGACGG................................................... 20 0 1 1.00 1 1 0 0 0 0 0 0 0
....................................................................................TGCCGTTGATTGTTTGGACA.................................................... 20 1 1 1.00 1 1 0 0 0 0 0 0 0
...............................GCCCATGATCATTCCGGCTGTC....................................................................................................... 22 0 1 1.00 1 1 0 0 0 0 0 0 0
.......................AAGTATTGGCCCATGATC................................................................................................................... 18 0 1 1.00 1 0 0 0 0 1 0 0 0
....................................................................................CGCCGTTGATTGTTTGGACGG................................................... 21 1 1 1.00 1 1 0 0 0 0 0 0 0
.................................................TGTCCAATGGAATCTGTGTCAT..................................................................................... 22 1 1 1.00 1 0 0 0 0 0 0 0 0
................................CCCATGATCATTCCGGCTGTC....................................................................................................... 21 0 1 1.00 1 1 0 0 0 0 0 0 0
....................................................................................TGCCGTCGATTGTTTGGAA..................................................... 19 2 5 0.20 1 0 0 0 0 0 1 0 0
......................................................................................CAGTGGATTGTTTGGACG.................................................... 18 2 6 0.17 1 0 1 0 0 0 0 0 0
.......GCTCCAGGGACGCCA...................................................................................................................................... 15 1 9 0.11 1 0 0 0 0 0 0 0 1
...............................................................................................GTTTCGACGGGTCGAT............................................. 16 2 18 0.06 1 0 0 0 0 0 0 1 0
................................................................................................TTTGGGCGGTTGGATAA........................................... 17 2 20 0.05 1 0 0 0 0 0 0 1 0

Anti-sense strand reads

ATGCCGTACGTTTATCGCCTACAGCGATAAAGATCTCCATGACTTATCGAACCGTCCAAACAATCAACGGCATGTGGAGAATCAAATGCCACAGATTCCATTGGACAGCCGGAATGATCATGGGCCAATACTTATGGCGTCCGTGGAGCTAAGCTG
***********************************...(((((...((.((((((((((..((((..((((((.((......)).))))))..))))...)))))))))).))...)))))*********************************** 		Read size # Mismatch Hit Count Total Norm Total M023
head
 O002
Head
........................................GACTAATCGAACCGTC.................................................................................................... 16 1 2 3.50 7 0 0
.........................................................................................CACAGATTCCATTGGACAGC............................................... 20 0 1 1.00 1 1 0
........................................GACTAATCGAACCGT..................................................................................................... 15 1 4 1.00 4 0 0
....................................................CGTCCAAACAATCAACGGCAT................................................................................... 21 0 1 1.00 1 0 1
............................................TATGGAACCGTCCAAACGAAC........................................................................................... 21 3 2 0.50 1 0 0
.........................................ACTAATCGAACCGTCTA.................................................................................................. 17 2 20 0.25 5 0 0
........................................GACTAATCGAACCGTCTA.................................................................................................. 18 2 20 0.10 2 0 0
......................................................................................................GCAGAGCCGGAATGAACAT................................... 19 3 17 0.06 1 0 0
..GCAGTATGTTTATCGCTTA....................................................................................................................................... 19 3 20 0.05 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim3 3R:4326320-4326475 - dsi_112 CAGCTTAGCTCCACGGACGCCATAAGTATTGGCCCATGATCATTCCGGCTGTCCAATGGAATCTGTGGCATTTGATTCTCCACATGCCGTTGATTGTTTGGACGGTTCGATAAGTCATGGAGATCTTTATCGCTGTAGGCGATAA-------ACGTACGGCAT
droSec2 scaffold_6:4347946-4348108 - CAGCTAAGCTCCACGGACGCCATAAGTATTGGCCCATGATCATTCCGACTGTCCAATGGAATCTGTGGCATTTGATTCTCTGCATGACGTTGATTGTTTGGACGGTTCGATAAGTCATGGAGATCTTTATCGCTGTAGGCTATTACAGAGTGACGTACGGCAT
dm3 chr3R:17143181-17143330 + AAGCTAAGCTCTACGAACGCCAAAACTATAGGCCTATGATCATTCCGACTGTCTAATGGAGTCTGTGGCACTTGATTCTCCACATGGCGTTGATTGTTTGGACGGTTCGATAAGTCGTGGAGATCTTTAGCGATGTA-----TTACAAAG--------TGCAT
droEle1 scf7180000490996:52187-52194 + TA-----------------------------------------------------------------------------------------------------------------------------------------------------------TGGCAT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim3
CAGCTTAGCTCCACGGACGCCATAAGTATTGGCCCATGATCATTCCGGCTGTCCAATGGAATCTGTGGCATTTGATTCTCCACATGCCGTTGATTGTTTGGACGGTTCGATAAGTCATGGAGATCTTTATCGCTGTAGGCGATAA-------ACGTACGGCATSizeHit CountTotal NormTotalV044
Embryo		M023
Head		M024
Male-body		M025
Embryo		O001
Testis		O002
Head		M053
Female-body		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary
....................................................................................TGCCGTTGATTGTTTGGACGG..........................................................21125.00250204100000000
....................................................................................TGCCGTTGATTGTTTGGACGGTT........................................................23120.00200152200001000
....................................................................................TGCCGTTGATTGTTTGGACG...........................................................2015.005014000000000
..............................................................................................................TAAGTCATGGAGATCTTTATCGCTGTA..........................2712.002000000020000
......................TAAGTATTGGCCCATGATCATTCCGGC..................................................................................................................2712.002000000010100
..............................................................................................TGTTTGGACGGTTCGATAAGTCATGGAGA........................................2911.001000000010000
....................................................................................................GACGGTTCGATAAGTCATG............................................1911.001000000000001
..................................................................................................................TCATGGAGATCTTTATCGCTG............................2111.001010000000000
.................................CCATGATCATTCCGGCTGTCCAAT..........................................................................................................2411.001000010000000
...................................................................................ATGCCGTTGATTGTTTGGAC............................................................2011.001000100000000
..............................................................................TCCACATGCCGTTGATTGTTTGGACGGTT........................................................2911.001000100000000
................................................CTGTCCAATGGAATCTGTGGCA.............................................................................................2211.001000000001000
.....................................................................................................................TGGAGATCTTTATCG...............................1511.001000000000100
.....................................................................................GCCGTTGATTGTTTGGACGG..........................................................2011.001010000000000
...............................GCCCATGATCATTCCGGCTGTC..............................................................................................................2211.001010000000000
.......................AAGTATTGGCCCATGATC..........................................................................................................................1811.001000010000000
................................CCCATGATCATTCCGGCTGTC..............................................................................................................2111.001010000000000
droSec2
CAGCTAAGCTCCACGGACGCCATAAGTATTGGCCCATGATCATTCCGACTGTCCAATGGAATCTGTGGCATTTGATTCTCTGCATGACGTTGATTGTTTGGACGGTTCGATAAGTCATGGAGATCTTTATCGCTGTAGGCTATTACAGAGTGACGTACGGCATSizeHit CountTotal NormTotalV113
Male-body		V114
Embryo		V115
Head		M054
Female-body
........................................................................................................GTTCGATAAGTCATGGAGATC......................................2111.0010001
droEle1
TA-----------------------------------------------------------------------------------------------------------------------------------------------------------TGGCATSizeHit CountTotal NormTotal
No Reads

Generated: 12/06/2013 at 02:31 PM