ID:

dmo_319

 Coordinate:

scaffold_6540:5455628-5455695 -

 Confidence:

confident

 Class:

Canonical miRNA

 Genomic Locale:

intron

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

Predicted structure

-33.4

Flybase annnotation

intron [Dmoj\GI23559-in]

Repeatable elements

NameClassFamilyStrand
G-richLow_complexityLow_complexity+

Sense Strand Reads

ATAGAAAGATCGATGCAGCTGATGGATCAATGGATACATGCGAGAGAGAAAGAGAGAGAGCTGTTTTAGTTGATATACATATATATTTTTCATTTTCAGCAATAGCTCTCACTCTCTCTCTCCCACTCCCTCTCTTCTTGTCACCCTCTTCCTCTCCTTCTATGGACA

***********************************...((.((((((((..(((.((((((((((...(((((......................))))))))))))))).))))))))))).)).......************************************ 		Read size # Mismatch Hit Count Total Norm Total M060

embryo

 M046

female body

 V041

embryo

 V056

head

 V110

male body		 V049

head
...............................................................................................TCAGCAATAGCTCTCACTCTCT................................................... 22 0 1 117.00 117 89 20 5 2 0 1
...............................................................................................TCAGCAATAGCTCTCACTCTCC................................................... 22 1 1 29.00 29 28 1 0 0 0 0
...............................................................................................TCAGCAATAGCTCTCACTCTC.................................................... 21 0 1 9.00 9 5 2 1 0 0 1
..................................................AGAGAGAGAGCTGTTTTAGTTGATA............................................................................................. 25 0 1 8.00 8 4 0 0 0 4 0
...............................................................................................TCAGCAATAGCTCTCACTCTCTC.................................................. 23 0 1 6.00 6 2 4 0 0 0 0
...............................................................................................TGAGCAATAGCTCTCACTCTCT................................................... 22 1 1 3.00 3 3 0 0 0 0 0
................................................................................................CAGCAATAGCTCTCACTCTCTC.................................................. 22 0 1 2.00 2 2 0 0 0 0 0
.................................................................................................AGCAATAGCTCTCACTCTCTCC................................................. 22 1 1 2.00 2 2 0 0 0 0 0
.................................................................................................AGCAATAGCTCTCACTCTCTCT................................................. 22 0 1 2.00 2 2 0 0 0 0 0
...............................................................................................CCAGCAATAGCTCTCACTCTCT................................................... 22 1 1 2.00 2 2 0 0 0 0 0
..................................................AGAGAGAGAGCTGTTTTAGTTG................................................................................................ 22 0 1 2.00 2 1 0 0 1 0 0
...............................................................................................TCAGCAATAGCTCTCTCTCTCT................................................... 22 1 1 2.00 2 2 0 0 0 0 0
...............................................................................................TCAGCAATAGCTCTCACTCT..................................................... 20 0 1 2.00 2 0 2 0 0 0 0
..................................................AAAGAGAGAGCTGTTTTAGTTGATA............................................................................................. 25 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TCAGCACTAGCTCTCACTCTCT................................................... 22 1 1 1.00 1 1 0 0 0 0 0
.................................................AAGAGAGAGAGCTGTTTTAGTTGATA............................................................................................. 26 0 1 1.00 1 1 0 0 0 0 0
......AGATCGATGCAGCTGATGGATC............................................................................................................................................ 22 0 1 1.00 1 0 1 0 0 0 0
.................................ATACATGCGGGAGAGAAAG.................................................................................................................... 19 1 1 1.00 1 0 0 0 1 0 0
...............................GGATACATGCGAGAGAGAA...................................................................................................................... 19 0 1 1.00 1 0 0 0 1 0 0
.................................ATACATGCGAGAGAGAAAG.................................................................................................................... 19 0 1 1.00 1 0 0 0 0 1 0
..................................................ATAGAGAGAGCTGTTTTAGTTGATA............................................................................................. 25 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TCAGCAATAGCTCTCACTCTCTCT................................................. 24 0 1 1.00 1 0 0 1 0 0 0
...............................................................................................TGAGCAATAGCTCTCACTCTC.................................................... 21 1 1 1.00 1 1 0 0 0 0 0
...........................................................................................GATCTCAGCAATAGCTCTCACTCTCT................................................... 26 3 1 1.00 1 1 0 0 0 0 0
...............................................................................................GCAGCAATAGCTCTCACTCTCT................................................... 22 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TCAGCAATAGCTCTCACGCTCT................................................... 22 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................CCAGCAATAGCTCTCACTCTC.................................................... 21 1 1 1.00 1 1 0 0 0 0 0
.................................................................................................ATCAATAGCTCTCACTCTCTC.................................................. 21 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TGAGCAATAGCTCTCACTCTCC................................................... 22 2 1 1.00 1 1 0 0 0 0 0
...............................................................................................TCAGCGATAGCTCTCACTCTCT................................................... 22 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TGAGCAATAGCTATCACTCTCT................................................... 22 2 1 1.00 1 1 0 0 0 0 0
...............................................................................................TTAGCAATAGCTCTCACTCTCT................................................... 22 1 1 1.00 1 1 0 0 0 0 0
.................................................AAGAGAGAGAGCTGTTTTAGTTGA............................................................................................... 24 0 1 1.00 1 0 0 1 0 0 0
...............................................................................................TCAGCAATAGCTTTCACTCTC.................................................... 21 1 1 1.00 1 1 0 0 0 0 0
..............................................................................................CTCAGCAATAGCTCTCACTCTCT................................................... 23 1 1 1.00 1 1 0 0 0 0 0
...............................................................................................TCAGCAATAGCTCTAACTCTCC................................................... 22 2 1 1.00 1 1 0 0 0 0 0
................................................................................................CAGCAATAGCTCTCACTCTC.................................................... 20 0 1 1.00 1 1 0 0 0 0 0
.................................................................................................AGCAATAGCTCTCACTCTCTC.................................................. 21 0 1 1.00 1 1 0 0 0 0 0
..................................................................................................TCAATAGCTCTCACTCTCT................................................... 19 1 2 0.50 1 1 0 0 0 0 0
...........GTTGCAGGTGATGGATCA........................................................................................................................................... 18 2 5 0.20 1 0 1 0 0 0 0

Anti-sense strand reads

TATCTTTCTAGCTACGTCGACTACCTAGTTACCTATGTACGCTCTCTCTTTCTCTCTCTCGACAAAATCAACTATATGTATATATAAAAAGTAAAAGTCGTTATCGAGAGTGAGAGAGAGAGGGTGAGGGAGAGAAGAACAGTGGGAGAAGGAGAGGAAGATACCTGT

************************************...((.((((((((..(((.((((((((((...(((((......................))))))))))))))).))))))))))).)).......*********************************** 		Read size # Mismatch Hit Count Total Norm Total M046

female body

 V110

male body		 V049

head
.....................................................................................................................................................AGGAGAGCATGATTCCTGT 19 3 10 1.50 15 13 2 0
.....................................................................................................................................................AGGAGAGCATGATCCCTGT 19 3 9 0.44 4 4 0 0
......................................................................................................................................................GGAGAGCATGATCCCTGT 18 3 20 0.15 3 1 0 2

Re-alignment of all predicted orthologs

Species Coordinate ID Type Alignment
droMoj3 scaffold_6540:5455578-5455745 - dmo_319 confident ATAGAAAGATCGATGCAGCTGATGGATCAATGGATACATGCGAGAGAGAAAGAGAGAGAGCTGTTTTAGTTGATATACATATATATTTTTCATTTTCAGCAATAGCTCTCACTCTCTCTCTCCCACTCCCTCTCTTCTT-GTCACCCTCTTCCTCT-CCTTCTATGGACA
droVir3 scaffold_13324:2915498-2915563 - ------------------------------------------------------------------------------------------------------TGGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCAT-CTCGCTTTTTTTCTGT-CTTTCTGTAGGCT
droGri2 scaffold_15110:10362271-10362372 - C----------------------------------------GAGAGAGAGAGAGGAAGAGTGACGCTGTCAATCTTACATATACAATTTATATTTCTCTCACTCGCTCTCTCTCTCTCTCTCTCTCTCTCTCT-----------CTCTCTGTC-----------------
droWil2 scf2_1100000004909:4729681-4729791 + GA----------------------------------------AAGTGAA----------ATGGCG---GCATTCCTTCATATTGTGTTTCTCTCTCTC----TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT-CTCTCTCTCTCTCTCT-CTCTCTATATATA
droYak3 2L:3897171-3897264 - AT------------------------------------------------------------------------ATACATATATATATTCCTTTGTCGGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCATGCTCGCTCTCTTTCTCCGCTTGCTATG----

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droMoj3
ATAGAAAGATCGATGCAGCTGATGGATCAATGGATACATGCGAGAGAGAAAGAGAGAGAGCTGTTTTAGTTGATATACATATATATTTTTCATTTTCAGCAATAGCTCTCACTCTCTCTCTCCCACTCCCTCTCTTCTT-GTCACCCTCTTCCTCT-CCTTCTATGGACASizeHit CountTotal NormTotalM046

Female-body		V041

Embryo		V049

Head		V056

Head		M060

Embryo		V110

Male-body
...............................................................................................TCAGCAATAGCTCTCACTCTCT.....................................................221117.0011720512890
...............................................................................................TCAGCAATAGCTCTCACTCTCC.....................................................22129.00291000280
...............................................................................................TCAGCAATAGCTCTCACTCTC......................................................2119.009211050
..................................................AGAGAGAGAGCTGTTTTAGTTGATA...............................................................................................2518.008000044
...............................................................................................TCAGCAATAGCTCTCACTCTCTC....................................................2316.006400020
................................................................................................CAGCAATAGCTCTCACTCTCTC....................................................2212.002000020
.................................................................................................AGCAATAGCTCTCACTCTCTCC...................................................2212.002000020
.................................................................................................AGCAATAGCTCTCACTCTCTCT...................................................2212.002000020
..................................................AGAGAGAGAGCTGTTTTAGTTG..................................................................................................2212.002000110
...............................................................................................TCAGCAATAGCTCTCACTCT.......................................................2012.002200000
.................................................AAGAGAGAGAGCTGTTTTAGTTGATA...............................................................................................2611.001000010
......AGATCGATGCAGCTGATGGATC..............................................................................................................................................2211.001100000
...............................GGATACATGCGAGAGAGAA........................................................................................................................1911.001000100
.................................ATACATGCGAGAGAGAAAG......................................................................................................................1911.001000001
...............................................................................................TCAGCAATAGCTCTCACTCTCTCT...................................................2411.001010000
.................................................AAGAGAGAGAGCTGTTTTAGTTGA.................................................................................................2411.001010000
................................................................................................CAGCAATAGCTCTCACTCTC......................................................2011.001000010
.................................................................................................AGCAATAGCTCTCACTCTCTC....................................................2111.001000010
droVir3
------------------------------------------------------------------------------------------------------TGGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCAT-CTCGCTTTTTTTCTGT-CTTTCTGTAGGCTSizeHit 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		SRR2096013

Ovary_Strain_9_oxidized		SRR2096014

Ovary_Strain_160_oxidized		SRR2096026

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096038

embryo_0-2h from 14 day old Strain 9 mothers		SRR2096050

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096055

Ovary_Min_43		SRR2096056

Ovary_Min_46		SRR2096057

Ovary_Min_50		SRR2096058

Ovary_Min_98		SRR2096059

Ovary_Min_164		SRR2096060

Ovary_Min_193		SRR2096061

embryo_0-2h from 14 day old Strain 160 mothers		SRR2096072

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096079

embryo_0-2h from 15to16 day old dysgenic mothers		SRR2096080

embryo_0-2h from 15to16 day old nondysgenic mothers		SRR2096081

embryo_0-2h from 15to16 day old nondysgenic mothers
No Reads
droGri2
C----------------------------------------GAGAGAGAGAGAGGAAGAGTGACGCTGTCAATCTTACATATACAATTTATATTTCTCTCACTCGCTCTCTCTCTCTCTCTCTCTCTCTCTCT-----------CTCTCTGTC-----------------SizeHit CountTotal NormTotalM041

Female-body		V109

Male-body
No Reads
droWil2
GA----------------------------------------AAGTGAA----------ATGGCG---GCATTCCTTCATATTGTGTTTCTCTCTCTC----TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT-CTCTCTCTCTCTCTCT-CTCTCTATATATASizeHit CountTotal NormTotalM020

Head		M045

Female-body		V117

Male-body		V118

Embryo		V119

Head
No Reads
droYak3
AT------------------------------------------------------------------------ATACATATATATATTCCTTTGTCGGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCATGCTCGCTCTCTTTCTCCGCTTGCTATG----SizeHit 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
..................................................................................................GCTCTCTCTCTCTCTCTCTCTC..................................................22200.05101000000000

Generated: 10/20/2015 at 06:59 PM