ID:

dsi_179

 Coordinate:

chrU_M_165:3515-3586 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-12.3 -12.3 -12.3

Flybase annnotation

intergenic

No Repeatable elements found

Sense Strand Reads

NNNNNNNNNNNNNNNNNCGCCACTGTGGTGGATTCTACTTATTCTCTCATTGTGTGTGTGCCATCTTCAGTTTCTAGCCTTTGGGATAATCTTTTGTCTCCCTGAAGTGTGTGTCTGTATGTGTGTGTGTGGGCTAATTAATATTAAATATTTTTTGATTTTGATTGTCGAT
***********************************........................(((((...(((......(((((((((((((....)))))))...)))).))....)))...))).))....****************************************** 		Read size # Mismatch Hit Count Total Norm Total O001
Testis
 SRR618934
Ovary		 SRR553487
Ovary		 O002
Head
 SRR553485
Ovary		 SRR553488
Ovary		 SRR553486
Ovary		 M025
embryo
 M053
Female-body		 GSM343915
embryo
..................................................TGTGTGTGTGCCATCTTCAGTTTC.................................................................................................. 24 0 5 26.00 130 125 0 0 5 0 0 0 0 0 0
............................................................................................TTTGTCTCCCTGAAGTGTGTGTC......................................................... 23 0 20 9.35 187 187 0 0 0 0 0 0 0 0 0
.............................................................................................................TGTGTCTGTATGTGTGTGTGT.......................................... 21 0 20 0.80 16 0 16 0 0 0 0 0 0 0 0
...........................................................................................................TGTGTGTCTGTATGTGTGT.............................................. 19 0 20 0.75 15 0 0 15 0 0 0 0 0 0 0
..................................................TGTGTGTGTGCCATCTTCAGTGCCTGGCC............................................................................................. 29 3 2 0.50 1 0 1 0 0 0 0 0 0 0 0
................................................................................................TCTCCCTGAAGTGTGTGTCTGTATG................................................... 25 0 20 0.45 9 0 9 0 0 0 0 0 0 0 0
...........................................................................................TTTTGTCTCCCTGAAGTGTGTGTC......................................................... 24 0 20 0.30 6 0 0 0 0 6 0 0 0 0 0
....................................................................................................CCTGAAGTGTGTGTCTGTATGTGTG............................................... 25 0 20 0.25 5 0 0 0 0 0 5 0 0 0 0
...............................................................................................................................................TTAAATATTTTTTGATTTTGATTGTCGAT 29 0 20 0.25 5 0 0 0 0 5 0 0 0 0 0
..................................................................................................TCCCTGAAGTGTGTGTC......................................................... 17 0 20 0.20 4 0 4 0 0 0 0 0 0 0 0
...................................TACTTATTCTCTCATTGTGTGTG.................................................................................................................. 23 0 20 0.20 4 0 0 0 0 0 4 0 0 0 0
..................................................................................................TCCCTGAAGTGTGTGTCTGTATGTGT................................................ 26 0 20 0.15 3 0 0 0 0 0 0 3 0 0 0
...............................................................................TTTGGGATAATCTTTTGTCT......................................................................... 20 0 20 0.10 2 0 2 0 0 0 0 0 0 0 0
...........................................................................................................TGTGTGTCTGTATGTGTGTGTG........................................... 22 0 20 0.10 2 0 0 2 0 0 0 0 0 0 0
.............................................................................................................................TGTGTGGGCTAATTAATATTAAATA...................... 25 0 20 0.10 2 0 1 0 0 1 0 0 0 0 0
.............................................................................................TTGTCTCCCTGAAGTGTGTGTCTGTATG................................................... 28 0 20 0.10 2 0 0 2 0 0 0 0 0 0 0
............................................................................................TTTGTCTCCCTGAAGTGTG............................................................. 19 0 20 0.05 1 0 0 1 0 0 0 0 0 0 0
...........................................................................................................TGAGTGTCTGTATGTGTGT.............................................. 19 1 20 0.05 1 0 0 0 0 0 1 0 0 0 0
...............................................................................................................TGTCTGTATGTGTATGTGTGGGCTA.................................... 25 1 20 0.05 1 0 0 0 0 0 1 0 0 0 0
...........................................................................................TTTTGTCTCCCTGAAGTGTGT............................................................ 21 0 20 0.05 1 0 0 0 0 0 0 1 0 0 0
................................................................................................................GTCTGTATGTGTGTGTGTTGG....................................... 21 1 20 0.05 1 0 1 0 0 0 0 0 0 0 0
................................................................................................................................GTGGGCTAATTAATATTAAATATTTTT................. 27 0 20 0.05 1 0 0 0 0 0 0 0 1 0 0
.........................................................................................................AGTGTGTGTCTGTATGTGTG............................................... 20 0 20 0.05 1 0 0 1 0 0 0 0 0 0 0
.............................................................................................................TGTGTCTGTATGTGTGTGTGTG......................................... 22 0 20 0.05 1 0 0 0 0 0 0 0 0 1 0
.................................................................................................................................TGGGCTAATTAATATTAAATATTTTT................. 26 0 20 0.05 1 0 0 1 0 0 0 0 0 0 0
...........................................CTCTCATTGTGTGTGTGCCA............................................................................................................. 20 0 20 0.05 1 0 0 0 0 0 0 0 0 0 1
.........................................................................................TCTTTTGTCTCCCTGAAGTGTGTGTCT........................................................ 27 0 20 0.05 1 0 1 0 0 0 0 0 0 0 0
......................................................................................TAATCTTTTGCCTCCCTGAAGTGTG............................................................. 25 1 20 0.05 1 0 1 0 0 0 0 0 0 0 0
...........................................................................................TTTTGTCTCCCTGAAGTGTGTG........................................................... 22 0 20 0.05 1 0 0 1 0 0 0 0 0 0 0
.............................................................................................................................TGTGTGGGTTAATTAATATTAAATA...................... 25 1 20 0.05 1 0 0 0 0 1 0 0 0 0 0
............................................................................................TTTGTCTCCCTGAAGTGTGTGTCTGTAA.................................................... 28 1 20 0.05 1 0 0 0 0 1 0 0 0 0 0
............................................................................................TTTGTCTCCCTGAAGTGTGTCGC......................................................... 23 2 20 0.05 1 0 0 0 0 0 1 0 0 0 0
...........................................................................................TTTTGTCTCCCTGAAGTGTGTGTCTG....................................................... 26 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0

Anti-sense strand reads

ATCGACAATCAAAATCAAAAAATATTTAATATTAATTAGCCCACACACACACATACAGACACACACTTCAGGGAGACAAAAGATTATCCCAAAGGCTAGAAACTGAAGATGGCACACACACAATGAGAGAATAAGTAGAATCCACCACAGTGGCGNNNNNNNNNNNNNNNNN
******************************************....((.(((...(((....((.((((...(((((((....)))))))))))))......)))...)))))........................*********************************** 		Read size # Mismatch Hit Count Total Norm Total SRR553485
Ovary		 SRR553486
Ovary		 SRR618934
Ovary		 SRR553488
Ovary		 SRR553487
Ovary		 M053
Female-body
.................................................CACATACAGACACACACTTCAGGGA.................................................................................................. 25 0 20 2.65 53 53 0 0 0 0 0
...................................................................................................................................TAAGTAGTATCCATTACAGTGGCG................. 24 3 1 1.00 1 0 0 0 0 0 0
.........................................................................................................................AATGATAGAAGATGTAGAAT............................... 20 3 12 0.75 9 8 0 0 0 1 0
................................................ACACATACAGACACACACTTCAGGGA.................................................................................................. 26 0 20 0.55 11 11 0 0 0 0 0
................................................................................................................CACACACACAATGAGAGAATAAGT.................................... 24 0 20 0.45 9 8 0 1 0 0 0
.....................................................TACAGACACACACTTCAGGGAGACAAA............................................................................................ 27 0 20 0.30 6 0 0 0 5 1 0
.................................................................................GATTATCCCAAAGGCT........................................................................... 16 0 20 0.30 6 0 0 6 0 0 0
.........................................................GACACACACTTCAGGGA.................................................................................................. 17 0 20 0.25 5 5 0 0 0 0 0
..................................................TCATACAGACACACACTTCAGGGA.................................................................................................. 24 1 20 0.15 3 3 0 0 0 0 0
.....................................................TACAGACACACACTTCAGGGAGACAAAA........................................................................................... 28 0 20 0.15 3 0 3 0 0 0 0
.............................TATTAATTAGCCCACACACACACATA..................................................................................................................... 26 0 20 0.10 2 0 2 0 0 0 0
...............................................CACACATACAGACACACACTTCAGGG................................................................................................... 26 0 20 0.10 2 2 0 0 0 0 0
.....................................................TACAGACACACACTTCAGGG................................................................................................... 20 0 20 0.10 2 0 0 0 0 2 0
..................................................ACATACAGACACACACTTCAGGGAGACAAAA........................................................................................... 31 0 20 0.05 1 1 0 0 0 0 0
..................................................ACATACAGACACACACTTCAGTGA.................................................................................................. 24 1 20 0.05 1 1 0 0 0 0 0
................................................................................................................CACACACACAATGAGAGA.......................................... 18 0 20 0.05 1 0 1 0 0 0 0
.............................................................................................................TGGCACACACACAATGAGAGAATA....................................... 24 0 20 0.05 1 1 0 0 0 0 0
.........................................................GACACACACTTCAGGGAGACAAAAGA......................................................................................... 26 0 20 0.05 1 0 0 0 1 0 0
...........................................................CACACACTTCAGGGAGACAAAAGATT....................................................................................... 26 0 20 0.05 1 0 1 0 0 0 0
.........................TTAGTATTAATTAGACCA................................................................................................................................. 18 2 20 0.05 1 0 0 0 0 0 0
.............................................CACACACATACAGACACACACTTCAGGGA.................................................................................................. 29 0 20 0.05 1 0 0 0 0 0 1
..............................................ACACACATACAGACACACACTTCAGGGA.................................................................................................. 28 0 20 0.05 1 0 1 0 0 0 0
.....................................................TACAGACGCACACTTCAGGGAAACAAAA........................................................................................... 28 2 20 0.05 1 0 0 0 1 0 0
.................................................CACATACAGACACACACTTCAGGGAGAC............................................................................................... 28 0 20 0.05 1 0 1 0 0 0 0
.................................................CACATACAGACACACACTTCAGGGAG................................................................................................. 26 0 20 0.05 1 0 0 0 0 1 0
..............TCAAAAAATATTTAATATTAATTAGCCC.................................................................................................................................. 28 0 20 0.05 1 0 1 0 0 0 0
..................................................ACGTACAGACACACACTTCAGGGAGA................................................................................................ 26 1 20 0.05 1 1 0 0 0 0 0
..................................................ACGTACAGACACACACTTCAGGGA.................................................................................................. 24 1 20 0.05 1 1 0 0 0 0 0
.................................................CACATACAGACACACACTTCAGGGAGA................................................................................................ 27 0 20 0.05 1 0 0 0 0 1 0
................................................ACACATACAGACACACACTTCAGGGAG................................................................................................. 27 0 20 0.05 1 0 0 1 0 0 0
...............................TTAATTAGCCCACACACACACATACAGA................................................................................................................. 28 0 20 0.05 1 1 0 0 0 0 0
...............................................CACACATACAGACACACACTTCAGGGAG................................................................................................. 28 0 20 0.05 1 0 0 0 1 0 0
.....................................................TAAAGACACACACTTCAGGGAGACAAAAGA......................................................................................... 30 1 20 0.05 1 0 1 0 0 0 0
.............................................CACACACATACAGACACACACTTCAGGGAA................................................................................................. 30 1 20 0.05 1 0 0 0 0 1 0
............................................................ACACACTTCAGGGAGAC............................................................................................... 17 0 20 0.05 1 0 0 1 0 0 0
...GACAATCAAAATCAAAAAATATTTAATA............................................................................................................................................. 28 0 20 0.05 1 0 0 0 1 0 0
..........................TAATATTAATTAGCCCACACACACACA....................................................................................................................... 27 0 20 0.05 1 0 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim3 chrU_M_165:3465-3636 - dsi_179 NNNNNNNNNNNNNNNNNCGCCACTGTGGTGGATTCTACTTATTCTCTCATTGTG------TGTGTGCCATCTTCAGTTTCTAG-CCTTTGGGATAATCTTTTGTCTCCCTGAAGTGTGTGTCTGT------------ATGTGTGTGTGTGGGCTAATTAATATTAAATATTTTTTGATTTTGATTGTCGAT
droSec2 scaffold_4173:2119-2257 + -----------------------------------TACTTATTCTCTCATTGTG----TGTGTGTGCCATCTTCAGTTTGCAG-CCTTTGGGATAATCTTTTGTCTCCCTGAAGTGTGTGTCTGT------------ATGTGTGTGTGTGGGCTAATTAATATTAAATATTTTTTGATTTTGATTGTCGAT
dm3 chrX:6059944-6060043 + -------------------------------------CTTATTCACCCATTGTGTGTGTGTGTGTGTCATCTTCAGCTTGCAG-CCTTTGGCATAATCTTTTGTCTCCCTGATGTGTGTGTCTGT------------ATGTGTGTGTGTG-----------------------------------------
droEre2 scaffold_4690:15038761-15038871 + -------------------------------------CCTATTCCCCGATTGTA----TGAGTGTGTCATCTTAAGTTTGCAGGCCTTTGGGATAATATTCTGTCTCCCTGAAGTGTGTGTCTATCTTTCTATCTTTGTGTGTGTGTGTGAG---------------------------------------
droYak3 v2_chrUn_3925:663-721 + -------------------------------------GA-------------------------------------------------------------------------AATTTTTGTCTAT------------AATTGTTT---------GATTAATATCTAATGTCGATTGAATTTAATT-TCGAT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim3
NNNNNNNNNNNNNNNNNCGCCACTGTGGTGGATTCTACTTATTCTCTCATTGTG------TGTGTGCCATCTTCAGTTTCTAG-CCTTTGGGATAATCTTTTGTCTCCCTGAAGTGTGTGTCTGT------------ATGTGTGTGTGTGGGCTAATTAATATTAAATATTTTTTGATTTTGATTGTCGATSizeHit 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
..................................................TGTG------TGTGTGCCATCTTCAGTTTC...............................................................................................................24526.0013000001255000000
...................................................................................................TTTGTCTCCCTGAAGTGTGTGTC.....................................................................23209.3518700001870000000
....................................................................................................................TGTGTCTGT------------ATGTGTGTGTGT..........................................21200.80160000000000016
..................................................................................................................TGTGTGTCTGT------------ATGTGTGT..............................................19200.75150000000001500
.......................................................................................................TCTCCCTGAAGTGTGTGTCTGT------------ATG...................................................25200.459000000000009
..................................................................................................TTTTGTCTCCCTGAAGTGTGTGTC.....................................................................24200.306000000060000
...........................................................................................................CCTGAAGTGTGTGTCTGT------------ATGTGTG...............................................25200.255000000000050
..................................................................................................................................................................TTAAATATTTTTTGATTTTGATTGTCGAT29200.255000000050000
.........................................................................................................TCCCTGAAGTGTGTGTC.....................................................................17200.204000000000004
...................................TACTTATTCTCTCATTGTG------TGTG...............................................................................................................................23200.204000000000040
.........................................................................................................TCCCTGAAGTGTGTGTCTGT------------ATGTGT................................................26200.153000000003000
......................................................................................TTTGGGATAATCTTTTGTCT.....................................................................................20200.102000000000002
..................................................................................................................TGTGTGTCTGT------------ATGTGTGTGTG...........................................22200.102000000000200
................................................................................................................................................TGTGTGGGCTAATTAATATTAAATA......................25200.102000000010001
....................................................................................................TTGTCTCCCTGAAGTGTGTGTCTGT------------ATG...................................................28200.102000000000200
...................................................................................................TTTGTCTCCCTGAAGTGTG.........................................................................19200.051000000000100
..................................................................................................TTTTGTCTCCCTGAAGTGTGT........................................................................21200.051000000001000
...................................................................................................................................................GTGGGCTAATTAATATTAAATATTTTT.................27200.051000100000000
................................................................................................................AGTGTGTGTCTGT------------ATGTGTG...............................................20200.051000000000100
....................................................................................................................TGTGTCTGT------------ATGTGTGTGTGTG.........................................22200.051000000100000
....................................................................................................................................................TGGGCTAATTAATATTAAATATTTTT.................26200.051000000000100
...........................................CTCTCATTGTG------TGTGTGCCA..........................................................................................................................20200.051100000000000
................................................................................................TCTTTTGTCTCCCTGAAGTGTGTGTCT....................................................................27200.051000000000001
..................................................................................................TTTTGTCTCCCTGAAGTGTGTG.......................................................................22200.051000000000100
..................................................................................................TTTTGTCTCCCTGAAGTGTGTGTCTG...................................................................26200.051000000000010
droSec2
-----------------------------------TACTTATTCTCTCATTGTG----TGTGTGTGCCATCTTCAGTTTGCAG-CCTTTGGGATAATCTTTTGTCTCCCTGAAGTGTGTGTCTGT------------ATGTGTGTGTGTGGGCTAATTAATATTAAATATTTTTTGATTTTGATTGTCGATSizeHit CountTotal NormTotalV113
Male-body		V114
Embryo		V115
Head		M054
Female-body
............................................................................................ATAATCTTTTGTCTCCCTGA...............................................................................20200.0510001
droEre2
-------------------------------------CCTATTCCCCGATTGTA----TGAGTGTGTCATCTTAAGTTTGCAGGCCTTTGGGATAATATTCTGTCTCCCTGAAGTGTGTGTCTATCTTTCTATCTTTGTGTGTGTGTGTGAG---------------------------------------SizeHit CountTotal NormTotalV040
Embryo		V060
Head		V107
Male-body		V108
Head		M055
Female-body		M057
Embryo
No Reads
droYak3
-------------------------------------GA-------------------------------------------------------------------------AATTTTTGTCTAT------------AATTGTTT---------GATTAATATCTAATGTCGATTGAATTTAATT-TCGATSizeHit CountTotal NormTotalV046
Embryo		V052
Head		V120
Male-body		V058
Head		M026
Head		M043
Female-body		M056
Embryo
....................................................................................................................................................................TAATGTCGATTGAATTTAATT-TCGAT26200.0510000010

Generated: 12/06/2013 at 02:33 PM