ID:

dsi_225

 Coordinate:

X:15970764-15970829 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-34.7 -34.7 -34.2

Flybase annnotation

Antisense to CDS [Dsim\GD17502-cds]; Antisense to exon [dsim_GLEANR_17624:1]

No Repeatable elements found

Sense Strand Reads

######################################################################################################################################################################
 ACAGTTCCATCGTCGGTGGCATGATTCGGGCGACACGCCCGATCATCCTTGCTTCTTGGCGGGCTTGCTCTTCCGGACCCTGACCTATGGCGGAAAGTTCCATCGTCTGTGGCATGATTCGGGCGACACGCCCGATCTCCCTTGCTTCTTGGAGGGCTGGCTCTTC
***********************************(((((((..(((..((((....(((((....(((.(((((...((........))))))))))....)))))...)))).))))))))))......*********************************** 		Read size # Mismatch Hit Count Total Norm Total O001
Testis
 O002
Head
.................................................................................................TTCCATCGTCTGTGGCAT................................................... 18 0 3 45.00 135 132 3
................................................................................................GTTCCATCGTCTGTGGCAT................................................... 19 0 3 5.00 15 15 0
...................................................CTGCTTGGGGGGCTTGCTC................................................................................................ 19 2 3 0.33 1 0 0
...................................................CTGCTTGGTGGGCTTGCTCT............................................................................................... 20 2 4 0.25 1 0 0
...................................................CTGCTTGGGGGGCTTGCTCTG.............................................................................................. 21 3 5 0.20 1 0 0
.................................................................................................................................................TTCTTGGTGGGCTGGAGCTTC 21 3 5 0.20 1 0 0
....................................................TGCTTGGTGGGCTTGCTC................................................................................................ 18 2 14 0.14 2 0 0
...................................................CTGCTTGGTGGGCTTGCTC................................................................................................ 19 2 8 0.13 1 0 0
......................................................CTTGGCGGGCTTGCTCTGCTA........................................................................................... 21 3 9 0.11 1 0 0
...................................................CTGCTTGGTGGGCTTGCTCG............................................................................................... 20 3 14 0.07 1 0 0
.....TCTATCGTCGGTGGCA................................................................................................................................................. 16 1 17 0.06 1 0 0
..................................................................................................................................................TCTTTGAGGGCTGGC..... 15 1 19 0.05 1 0 0
...................................................CTGCTTGGGGGGCTTGCTCC............................................................................................... 20 3 19 0.05 1 0 0
..............................................................................................................................CGAGCCCGATCTCCCT........................ 16 2 20 0.05 1 0 0

Anti-sense strand reads

######################################################################################################################################################################
 GAAGAGCCAGCCCTCCAAGAAGCAAGGGAGATCGGGCGTGTCGCCCGAATCATGCCACAGACGATGGAACTTTCCGCCATAGGTCAGGGTCCGGAAGAGCAAGCCCGCCAAGAAGCAAGGATGATCGGGCGTGTCGCCCGAATCATGCCACCGACGATGGAACTGT
***********************************......((((((((((.((((...(((((....((((((((((........))...))))).)))....)))))....))))..)))..)))))))*********************************** 		Read size # Mismatch Hit Count Total Norm Total O001
Testis
........................................................................GCCGCCATAGCTCAGGG............................................................................. 17 2 12 5.75 69 0
.........................................................................CCGCCATAGCTCAGGG............................................................................. 16 1 2 2.00 4 0
............................................................ACGATGGAACTTTCCGCCATAG.................................................................................... 22 0 1 1.00 1 1
............................................................ACGATGGAACTTTCCGCCATAGGTCAG............................................................................... 27 0 1 1.00 1 1
........................................................................TCCGCCATAGCTCAGGG............................................................................. 17 1 2 0.50 1 0
........................................................................TCCGCCATAGCTCAG............................................................................... 15 1 3 0.33 1 0
........................AAGGAGATCGGGCGTG.............................................................................................................................. 16 1 4 0.25 1 0
.........................................................................CCGCCATAGCTCAGG.............................................................................. 15 1 5 0.20 1 0
..........................................................................CGCCATAGCTCAGGG............................................................................. 15 1 5 0.20 1 0
............................................................................CCATAGGGCAGGGTC........................................................................... 15 1 10 0.10 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droSim3 X:15970714-15970879 - dsi_225 ACAGTTCCATCGTCGGTGGCATGATTCGGGCGACACGCCCGATCATCCTTGCTTCTTGGCGGGCTTGCTCTTCCGGACCCTGACCTATGGCGGAAAGTTCCATCGTCTGTGGCATGATTCGGGCGACACGCCCGATCTCCCTTGCTTCTTGGAGGGCTGGCTCTTC
droSec2 scaffold_701:1722-1887 + CCAGTTCCATCGTATGTGGCATGATTCGTGCGTCTCGCCCGATCACCCTTGCTTCTTGGCGGGCTTGCTCTTCCGGACTCTGACCTAGGGCGGACAGTACCATCGCCTGTGGCATGATTCGGGCGACACGCCCGATCACCCTTGCTTCTTGGAGGGCTCGCTCTTC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droSim3
ACAGTTCCATCGTCGGTGGCATGATTCGGGCGACACGCCCGATCATCCTTGCTTCTTGGCGGGCTTGCTCTTCCGGACCCTGACCTATGGCGGAAAGTTCCATCGTCTGTGGCATGATTCGGGCGACACGCCCGATCTCCCTTGCTTCTTGGAGGGCTGGCTCTTCSizeHit 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
.................................................................................................TTCCATCGTCTGTGGCAT...................................................18345.0013500001323000000
................................................................................................GTTCCATCGTCTGTGGCAT...................................................1935.00150000150000000
droSec2
CCAGTTCCATCGTATGTGGCATGATTCGTGCGTCTCGCCCGATCACCCTTGCTTCTTGGCGGGCTTGCTCTTCCGGACTCTGACCTAGGGCGGACAGTACCATCGCCTGTGGCATGATTCGGGCGACACGCCCGATCACCCTTGCTTCTTGGAGGGCTCGCTCTTCSizeHit CountTotal NormTotalV113
Male-body		V114
Embryo		V115
Head		M054
Female-body
..........................................................................................................................GCGACACGCCCGATCACCCTT.......................21160.0610100
........ATCGTATGTGGCATGATTCGT.........................................................................................................................................21190.0510100
.....TCCATCGTATGTGGCATGATT............................................................................................................................................21190.0510001
................TGGCATGATTCGTGCGTCTCGC................................................................................................................................22200.0510100

Generated: 12/06/2013 at 02:34 PM