ID:

dsi_111

Coordinate:

3R:9772613-9772655 +

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-23.7	-23.6	-23.6

Flybase annnotation

intergenic

No Repeatable elements found

Sense Strand Reads

ACCGCCTTCGAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAACGCAGCGAAAGTTCGACGGCAAAATCTGTGGCAAGCGGCGCG *********************************.((..((((((.((.((((((((((..(((........)))..))))....)))))).))...)))))).))**********************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M023 head	M024 male body	M025 embryo	O001 Testis	SRR618934 Ovary
..........................................................................GAAGCGCTCAGAAAACTG...................................................	18	0	1	15.00	15	13	2	0	0	0
...............................................................................................................GTTCGACGGCAAAATCTG..............	18	0	1	4.00	4	3	0	0	0	1
...............................................................................................................GTTCGACGGCAAAATCTGT.............	19	0	1	1.00	1	0	0	1	0	0
..................................................CGGTTTGGCGAGTCGAGCGTG........................................................................	21	0	1	1.00	1	1	0	0	0	0
...................................................................................................AACGCAGCGAAAGTTCGAC.........................	19	0	1	1.00	1	1	0	0	0	0
....................................................................................................ACGCAGCGAAAGTTCGAC.........................	18	0	1	1.00	1	1	0	0	0	0
......................................................................................AAACTGCGCACGGAACGC.......................................	18	0	1	1.00	1	0	0	0	1	0
.......................TTCGGATTCGGATGCGGGCGT...................................................................................................	21	0	1	1.00	1	1	0	0	0	0
............................................TCAGTTCGGTGTGGCGATT................................................................................	19	2	2	0.50	1	0	0	0	0	1
.........................................................................................CTGGTCACGGAACGTAGCG...................................	19	3	4	0.25	1	0	0	0	0	0
.........................................................................................................GGGAAACTTGGACGGCAAAA..................	20	3	15	0.07	1	0	0	0	0	1
..........................................................................................TGGTCACGGAACGTAGCG...................................	18	3	20	0.05	1	0	0	0	0	0
...........................................................................................GGTCACGGAACGTAGCGA..................................	18	3	20	0.05	1	0	0	0	0	0
.........................................................................................................GGGAAACTTCGACGGCA.....................	17	2	20	0.05	1	0	0	0	0	1

Anti-sense strand reads

CGCGCCGCTTGCCACAGATTTTGCCGTCGAACTTTCGCTGCGTTCCGTGCGCAGTTTTCTGAGCGCTTCGCACACGCTCGACTCGCCAAACCGAACTGAACGCCCGCATCCGAATCCGAATCCAAATCGGATTCGAAGGCGGT **********************************((.((((((...((.((((((....((((..(((........)))..)))))))))).)).))))))..)).*********************************	Read size	# Mismatch	Hit Count	Total Norm	Total
..................................................................................................................TCCGACTCCAGATCGGATTCGA.......	22	2	2	0.50	1
................GATTTTGCCGGCGAA................................................................................................................	15	1	20	0.05	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droSim3	3R:9772563-9772705 +	dsi_111	ACCG----CC---------------------------TTC----GAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACGGCAAAATC----------TGTGG-CAAGCGGCGCG-
droSec2	scaffold_0:10253879-10254021 +		ACCG----CC---------------------------TTC----GAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGTGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACGGCAAAATC----------TGTGG-CAAGCGGCGCG-
dm3	chr3R:11701380-11701526 -		ACCGCCTGCC---------------------------TGC----GAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACGGGAAAATC----------TGTGG-CAAGCGGCGCG-
droEre2	scaffold_4770:11226439-11226575 -		AGCG----CC---------------------------TGC----GAATCCGAT------TTGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGAA--------------------AGTTCG-----ACGGGAGAATC----------TGTGG-CAAGCGGCGGG-
droYak3	3R:14735775-14735931 +		ACCGACCGCC---------------------------TGC----GAATCCGACTTGGATTCGGATTCGGATGCGGACGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAG--------------------AGTTCG-----ACGGGAAAATCTGTGGAAATCTGTGG-CAAGCGGCGCG-
droEug1	scf7180000409797:1836644-1836769 +		AGCG----CC---------------------------TGC----GA------T------------TTGGAATCGGGCATTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAATTGCGCACCGAAAA---GACGACGAC--------------------GG-ACG-----ACGGGAAAAGC----------TCTCA-GAAGACGCGCG-
droBia1	scf7180000302136:1305975-1306129 -		C-------------------------------------------------GATTGGGATTCCGCCTCGCAATCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTCCGAAGCGCTCAGATACCGGCGCACGGAACAGAACGCATCGCAAAGATTCGAATCGAGGCGACGAATCG-----ACGGGAAAACC----------TCTCA-GAAGACGCGCG-
droTak1	scf7180000415170:12790-12909 +		ACCG----CC---------------------------TGC----GATT---------ATTCCGATTCCGATTCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACGGCGCACGGAA-----C---------------------------------G-----ACGGGAA-ATC----------TCTCA-GAAGACGCGCG-
droEle1	scf7180000491080:1484473-1484603 -		TCCG-----------------------------------C----GATT------CCGATTCCAAATCCGATTCGGGCGTTTAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACCGCGCACGGAA-----CGCACCGAA--------------------AATTCG-----AAGGGAATAGC------------TCC-CAAGACGCGCG-
droRho1	scf7180000758667:109725-109859 -		ACCG----CC---------------------------TGC----GATTCCG------ATTCAAATTCCGATTCGGCCGCTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGAA--------------------AATTCG-----ACGGGAAAATC------------TCA-CAAGACGCGCG-
droFic1	scf7180000452523:1076923-1077053 -		--CG----CC---------------------------TGC----GATTCC------------------GACTCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGACACAA-----------------TT-CGATTCGACGGGGAAAAT----------TCTCA-CAAGACGCGCG-
droKik1	scf7180000302639:981118-981262 +		C--G----CTTCGGAATCAGTTCGGGTCTCGACCGCCTCC----G-------------------TTCGGTTTCGGATTTTCAGTTCGGTTT-GCGAGGCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----GACGACGGA--------------------A----------ACGGCAACTTC----------TGACTCGAGAACGCGCG-
droAna3	scaffold_13340:16307153-16307273 -		GGCG-CTGCC---------------------------TCC----------------------------GAATCGCCCGTTCAGTTCGGTTTTGCGGGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----CGCATCGAG--------------------AAT-CG-----GTTGGA-ATTC----------TGAGGCCAAAACGCGCG-
droBip1	scf7180000396708:3738350-3738470 +		GCCG-CTGCC---------------------------TCC----------------------------GAGTCGCTCGTTCAGTTCGGTTTTGCGGGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----CGCATCGAG--------------------AAT-CG-----GTTGGAA-TTC----------AGAGGCCAAAACGCGCG-
droPer2	scaffold_3:3133132-3133255 -		CTCG----TC---------------------------TCCGGCTGCTTCC------------------GAT-----TCCTCAGTTCGGTTTTACGATTCGAGCGCGAACGAAGCGGCGAGAGAACCGCGCATAAAA-----CGCATCGAC--------------------AAATAA-----AGTAGAAAAAA----------C-TCA-AAAACCTCGAGT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droSim3

ACCG----CC---------------------------TTC----GAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACGGCAAAATC----------TGTGG-CAAGCGGCGCG-	Size	Hit Count	Total Norm	Total	V044 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
.............................................................................................................GAAGCGCTCAGAAAACTG.............................................................................................	18	1	15.00	15	0	13	2	0	0	0	0	0	0	0	0	0
...........................................................................................................................................................................GTTCG-----ACGGCAAAATC----------TG................	18	1	4.00	4	0	3	0	0	0	0	0	0	0	0	0	1
...........................................................................................................................................................................GTTCG-----ACGGCAAAATC----------TGT...............	19	1	1.00	1	0	0	0	1	0	0	0	0	0	0	0	0
.....................................................................................CGGTTTGGCGAGTCGAGCGTG..................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
......................................................................................................................................AA-----CGCAGCGAA--------------------AGTTCG-----AC.....................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
.......................................................................................................................................A-----CGCAGCGAA--------------------AGTTCG-----AC.....................................	18	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0
.........................................................................................................................AAACTGCGCACGGAA-----CGC............................................................................	18	1	1.00	1	0	0	0	0	1	0	0	0	0	0	0	0
..........................................................TTCGGATTCGGATGCGGGCGT.............................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0	0	0

droSec2

ACCG----CC---------------------------TTC----GAATCCGATTTGGATTCGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGTGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACGGCAAAATC----------TGTGG-CAAGCGGCGCG-	Size	Hit Count	Total Norm	Total	V113 Male-body	V114 Embryo	V115 Head	M054 Female-body
...........................................................................................................................................................................GTTCG-----ACGGCAAAATC----------TGTGG-CAAGC.......	26	1	1.00	1	0	0	0	1
......................................................................................................CGTGTGCGAAGCGCTCAGAAAACTGC............................................................................................	26	1	1.00	1	1	0	0	0
.......................................................................................GTTTGGCGTGTCGAGCGTGTGCG..............................................................................................................	23	1	1.00	1	0	1	0	0
............................................................................................................................CTGCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----A......................................	28	1	1.00	1	0	0	0	1
.......................................................................................................GTGTGCGAAGCGCTCAGAAAACTG.............................................................................................	24	1	1.00	1	1	0	0	0
...............................................................ATTCGGATGCGGGCGTTCAGT........................................................................................................................................	21	1	1.00	1	1	0	0	0
......................................................................................................................................AA-----CGCAGCGAA--------------------AGTTCG-----ACG....................................	20	1	1.00	1	0	0	1	0
.................................................................................................................................CACGGAA-----CGCAGCGAA--------------------AGT...............................................	19	1	1.00	1	0	1	0	0
..............................................................................................................................GCGCACGGAA-----CGCAGCGAA--------------------AGTTCG-----ACG....................................	28	1	1.00	1	1	0	0	0
........................................................................................................................AAAACTGCGCACGGAA-----CG.............................................................................	18	1	1.00	1	0	0	0	1
........................................................................................................TGTGCGAAGCGCTCAGAA..................................................................................................	18	1	1.00	1	0	0	1	0
.................................................................................AGTTCGGTTTGGCGTGTCG........................................................................................................................	19	1	1.00	1	0	1	0	0
......................................................................................................CGTGTGCGAAGCGCTCAGAAAACTG.............................................................................................	25	1	1.00	1	0	0	1	0
.............................................................................................CGTGTCGAGCGTGTGCGAAGCG.........................................................................................................	22	1	1.00	1	0	0	1	0
.............................................................................................................GAAGCGCTCAGAAAACTGCGCACG.......................................................................................	24	1	1.00	1	0	0	1	0

droEre2

AGCG----CC---------------------------TGC----GAATCCGAT------TTGGATTCGGATGCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGAA--------------------AGTTCG-----ACGGGAGAATC----------TGTGG-CAAGCGGCGGG-	Size	Hit Count	Total Norm	Total	V040 Embryo	V060 Head	V107 Male-body	V108 Head	M055 Female-body	M057 Embryo
............................................................................................................CGAAGCGCTCAGAAAACTGC............................................................................................	20	1	1.00	1	0	0	0	1	0	0

droYak3

ACCGACCGCC---------------------------TGC----GAATCCGACTTGGATTCGGATTCGGATGCGGACGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCAGCGAG--------------------AGTTCG-----ACGGGAAAATCTGTGGAAATCTGTGG-CAAGCGGCGCG-	Size	Hit Count	Total Norm	Total	V046 Embryo	V052 Head	V120 Male-body	V058 Head	M026 Head	M043 Female-body	M056 Embryo
.......................................................................................................................................................................................GGGAAAATCTGTGGAAATCTGTG..............	23	1	1.00	1	0	0	1	0	0	0	0
........................................................................................TTTGGCGAGTCGAGCGTGTG................................................................................................................	20	1	1.00	1	0	0	0	1	0	0	0
....................................................................................................................TCAGAAAACTGCGCACGGAA-----CGC............................................................................	23	1	1.00	1	0	0	1	0	0	0	0

droEug1

AGCG----CC---------------------------TGC----GA------T------------TTGGAATCGGGCATTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAATTGCGCACCGAAAA---GACGACGAC--------------------GG-ACG-----ACGGGAAAAGC----------TCTCA-GAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droBia1

C-------------------------------------------------GATTGGGATTCCGCCTCGCAATCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTCCGAAGCGCTCAGATACCGGCGCACGGAACAGAACGCATCGCAAAGATTCGAATCGAGGCGACGAATCG-----ACGGGAAAACC----------TCTCA-GAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droTak1

ACCG----CC---------------------------TGC----GATT---------ATTCCGATTCCGATTCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACGGCGCACGGAA-----C---------------------------------G-----ACGGGAA-ATC----------TCTCA-GAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droEle1

TCCG-----------------------------------C----GATT------CCGATTCCAAATCCGATTCGGGCGTTTAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACCGCGCACGGAA-----CGCACCGAA--------------------AATTCG-----AAGGGAATAGC------------TCC-CAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droRho1

ACCG----CC---------------------------TGC----GATTCCG------ATTCAAATTCCGATTCGGCCGCTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGAA--------------------AATTCG-----ACGGGAAAATC------------TCA-CAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droFic1

--CG----CC---------------------------TGC----GATTCC------------------GACTCGGGCGTTCAGTTCGGTTTGGCGAGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGGAA-----CGCACCGACACAA-----------------TT-CGATTCGACGGGGAAAAT----------TCTCA-CAAGACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droKik1

C--G----CTTCGGAATCAGTTCGGGTCTCGACCGCCTCC----G-------------------TTCGGTTTCGGATTTTCAGTTCGGTTT-GCGAGGCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----GACGACGGA--------------------A----------ACGGCAACTTC----------TGACTCGAGAACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droAna3

GGCG-CTGCC---------------------------TCC----------------------------GAATCGCCCGTTCAGTTCGGTTTTGCGGGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----CGCATCGAG--------------------AAT-CG-----GTTGGA-ATTC----------TGAGGCCAAAACGCGCG-	Size	Hit Count	Total Norm	Total	V105 Male-body	V106 Head	V055 Head	V039 Embryo	M044 Female-body	M058 Embryo
.........................................................................................TTTGCGGGTCGAGCGTGTGCGAAGC..........................................................................................................	25	1	1.00	1	0	0	0	0	0	1

droBip1

GCCG-CTGCC---------------------------TCC----------------------------GAGTCGCTCGTTCAGTTCGGTTTTGCGGGTCGAGCGTGTGCGAAGCGCTCAGAAAACTGCGCACGAAA-----CGCATCGAG--------------------AAT-CG-----GTTGGAA-TTC----------AGAGGCCAAAACGCGCG-	Size	Hit Count	Total Norm	Total
No Reads

droPer2

CTCG----TC---------------------------TCCGGCTGCTTCC------------------GAT-----TCCTCAGTTCGGTTTTACGATTCGAGCGCGAACGAAGCGGCGAGAGAACCGCGCATAAAA-----CGCATCGAC--------------------AAATAA-----AGTAGAAAAAA----------C-TCA-AAAACCTCGAGT	Size	Hit Count	Total Norm	Total	V111 Male-body	V042 Embryo	V050 Head	V057 Head	M021 Embryo	M042 Female-body
........................................................................................................CGAACGAAGCGGCGAGAGAACCGCG...........................................................................................	25	1	1.00	1	1	0	0	0	0	0

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