ID:

dpe_1493

 Coordinate:

scaffold_339:16009-16159 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

Flybase annnotation

CDS [Dper\GL17617-cds]; exon [dper_GLEANR_1941:2]; intron [Dper\GL17617-in]

No Repeatable elements found

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
CACACAATCGCTTATCTTCATCGGTACTTAGGCGTTGGTTGCGTTTTATTTCCTATTTGCAAACGGAGGTTAATACATTTTATTCTTATATGTATCTACTAACGCTTCGTCTTTTCTCCCGCTCTTTTATCGACAGCTCAAACTAATGTTACCTTCTTGTCTTTTCATATTGTGACCATTTTTCTTCTTGTCTTTTCATAGTGTGATCATTTTTCTTCTCTTTTTGCTCATTGGGGATACCCATGGATATC
**************************************************............((((((((((((((((...........))))))....)))).)))))).....................(((((........((((((((.....((......))....)))).)))).......))))).........************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 M021
embryo
.........................ACTTAGGCGTTGGTTGCGTTTTAT.......................................................................................................................................................................................................... 24 0 20 0.20 4 4 0 0
........................TACTTAGGCGTTGGTTGC................................................................................................................................................................................................................. 18 0 20 0.15 3 0 0 3
........................TACTTAGGCGTTGGTTGCGTTTTA........................................................................................................................................................................................................... 24 0 20 0.10 2 2 0 0
......................GGTACTTAGGCGTTGGTTGC................................................................................................................................................................................................................. 20 0 20 0.10 2 0 2 0
.......................GTACTTAGGCGTTGGTTGCG................................................................................................................................................................................................................ 20 0 20 0.10 2 0 2 0
.......................GTACTTAGGCGTTGGTTGCGTTTTAT.......................................................................................................................................................................................................... 26 0 20 0.05 1 1 0 0
....................TCGGTACTTAGGCGTTGGTTGCGT............................................................................................................................................................................................................... 24 0 20 0.05 1 0 1 0
................TTCATCGGTACTTAGGCGTTGGTTGCGT............................................................................................................................................................................................................... 28 0 20 0.05 1 0 1 0
........................TACTTAGGCGTTGGTTGCGTTTT............................................................................................................................................................................................................ 23 0 20 0.05 1 1 0 0
........................TACTTAGGCGTTGGTTGCGTTA............................................................................................................................................................................................................. 22 1 20 0.05 1 1 0 0
............TATCTTCATCGGTACTTAGGCG......................................................................................................................................................................................................................... 22 0 20 0.05 1 1 0 0
.............ATCTTCATGGGTACTTAGGCGTTGG..................................................................................................................................................................................................................... 25 1 20 0.05 1 1 0 0
........................TACTTAGGCGTTGGTTGCGTTT............................................................................................................................................................................................................. 22 0 20 0.05 1 1 0 0
........................TACTTAGGCGTTGGTTGCGT............................................................................................................................................................................................................... 20 0 20 0.05 1 1 0 0
................TTCATCGGTACTTAGGCGTTGGTTGCG................................................................................................................................................................................................................ 27 0 20 0.05 1 0 1 0
........................TACTTAGGCGTTGGTTGCGTTTTAAAA........................................................................................................................................................................................................ 27 3 20 0.05 1 1 0 0
..............................GGCGTTGGTTGCGTTTTATTTCCTATT.................................................................................................................................................................................................. 27 0 20 0.05 1 1 0 0

Anti-sense strand reads

GTGTGTTAGCGAATAGAAGTAGCCATGAATCCGCAACCAACGCAAAATAAAGGATAAACGTTTGCCTCCAATTATGTAAAATAAGAATATACATAGATGATTGCGAAGCAGAAAAGAGGGCGAGAAAATAGCTGTCGAGTTTGATTACAATGGAAGAACAGAAAAGTATAACACTGGTAAAAAGAAGAACAGAAAAGTATCACACTAGTAAAAAGAAGAGAAAAACGAGTAACCCCTATGGGTACCTATAG
**************************************************............((((((((((((((((...........))))))....)))).)))))).....................(((((........((((((((.....((......))....)))).)))).......))))).........************************************************** 		Read size # Mismatch Hit Count Total Norm Total V111
male body		 M042
female body
............................................................................................................................................................................................................................AAAAACGCGGAACCCCTA............. 18 2 18 0.11 2 2 0
....GTTAGCGAATAGAAGTAGCCATGAATCC........................................................................................................................................................................................................................... 28 0 20 0.05 1 1 0
......................................................................................................................................................................................................ATCACACTAGTTACATGAAG................................. 20 3 20 0.05 1 0 1
.............................................................................................................................................TGATTACAATGGAAGAACAGAAA....................................................................................... 23 0 20 0.05 1 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_339:15959-16209 + dpe_1493 CACACAATCGCTTATCT-----TCATCGGTACTTAGGCGTTGGTTGCGTTTTATTTCCTATTTGCAAACGGAGGTTAATACATTTTATTCTTATATGTATCTACTAACGCTTCGTCTTTTCTC-CCGCTCTTTTATCGACAGCTCAAACTAATGTTACCTTCTTGTCTTTTCATATTGTGACCATTTTTCTTCTTGTCTTTTCATAGTGTGATCATTTTTCTTCTCTTTTTGCTCATTGGGGATACCCATGGATATC
dp5 Unknown_singleton_2783:1852-2073 + CACACAATCGCATATCACAAACGCAT---------GGCGTTGGTTGCGTTTTATTTCCTATTTGCAAAAGGAGGTTAATACATTTTATTCTTATATGTATCTACGCACGCTTCGTCTTTTCTCCCCGCTCGTTTATCGACTGCTCAAACTAATGTGACCTTCTTGTCTTTTCATATTGTGACCATTTTTCTTCTTGTCTTTTCATAGTGTGATCATTTTTCTTATCTTTTT--------------------------
droAna3 scaffold_13248:3479475-3479499 - CTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCGGGGACTCGCACGGCAACC
droKik1 scf7180000302344:1433207-1433233 + TGCTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGGTGATTCTCATGGTAATC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
CACACAATCGCTTATCT-----TCATCGGTACTTAGGCGTTGGTTGCGTTTTATTTCCTATTTGCAAACGGAGGTTAATACATTTTATTCTTATATGTATCTACTAACGCTTCGTCTTTTCTC-CCGCTCTTTTATCGACAGCTCAAACTAATGTTACCTTCTTGTCTTTTCATATTGTGACCATTTTTCTTCTTGTCTTTTCATAGTGTGATCATTTTTCTTCTCTTTTTGCTCATTGGGGATACCCATGGATATCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
..............................ACTTAGGCGTTGGTTGCGTTTTAT...........................................................................................................................................................................................................24200.204040000
.............................TACTTAGGCGTTGGTTGC..................................................................................................................................................................................................................18200.153300000
.............................TACTTAGGCGTTGGTTGCGTTTTA............................................................................................................................................................................................................24200.102020000
...........................GGTACTTAGGCGTTGGTTGC..................................................................................................................................................................................................................20200.102000002
............................GTACTTAGGCGTTGGTTGCG.................................................................................................................................................................................................................20200.102000002
............................GTACTTAGGCGTTGGTTGCGTTTTAT...........................................................................................................................................................................................................26200.051010000
.........................TCGGTACTTAGGCGTTGGTTGCGT................................................................................................................................................................................................................24200.051000001
................T-----TCATCGGTACTTAGGCGTTGGTTGCGT................................................................................................................................................................................................................28200.051000001
.............................TACTTAGGCGTTGGTTGCGTTTT.............................................................................................................................................................................................................23200.051010000
.............................TACTTAGGCGTTGGTTGCGTTA..............................................................................................................................................................................................................22200.051010000
............TATCT-----TCATCGGTACTTAGGCG..........................................................................................................................................................................................................................22200.051010000
.............................TACTTAGGCGTTGGTTGCGTTT..............................................................................................................................................................................................................22200.051010000
.............................TACTTAGGCGTTGGTTGCGT................................................................................................................................................................................................................20200.051010000
................T-----TCATCGGTACTTAGGCGTTGGTTGCG.................................................................................................................................................................................................................27200.051000001
.............................TACTTAGGCGTTGGTTGCGTTTTAAAA.........................................................................................................................................................................................................27200.051010000
...................................GGCGTTGGTTGCGTTTTATTTCCTATT...................................................................................................................................................................................................27200.051010000
dp5
CACACAATCGCATATCACAAACGCAT---------GGCGTTGGTTGCGTTTTATTTCCTATTTGCAAAAGGAGGTTAATACATTTTATTCTTATATGTATCTACGCACGCTTCGTCTTTTCTCCCCGCTCGTTTATCGACTGCTCAAACTAATGTGACCTTCTTGTCTTTTCATATTGTGACCATTTTTCTTCTTGTCTTTTCATAGTGTGATCATTTTTCTTATCTTTTT--------------------------SizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
.........................................................................................................................................GACTGCTCAAACTAATGTGACCTTCT..............................................................................................2650.4020000000020
.................................................................................................TATCTACGCACGCTTCGTCTTTTCTG......................................................................................................................................2650.2010100000000
.......................................................TCCTATTTGCAAAAGGAGGTTAATACATT.............................................................................................................................................................................2960.1710100000000
droAna3
CTC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATCGGGGACTCGCACGGCAACCSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
No Reads
droKik1
TGCTT--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATTGGTGATTCTCATGGTAATCSizeHit CountTotal NormTotal
No Reads

Generated: 06/08/2015 at 04:15 PM