ID:

dps_781

 Coordinate:

2:25190221-25190371 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-17.4 -17.3 -17.2

Flybase annnotation

CDS [Dpse\GA25584-cds]; exon [Dpse\GA25584:6]; intron [Dpse\GA25584-in]

Repeatable elements

NameClassFamilyStrand
Hopers2DNAhAT-hobo-
Hopers2DNAhAT-hobo-
mature
  1. Unknown_group_6:49267-49286 +
  2. Unknown_group_140:19629-19648 +
  3. Unknown_group_10:72468-72487 +
  4. XL_group1e:9869175-9869194 +
  5. 3:8108785-8108804 +
  6. 3:15963522-15963541 +
  7. dps_781  2:25190351-25190370 +
  8. XL_group3a:92672-92691 +
  9. Unknown_group_259:7690-7709 +
  10. 4_group3:11170111-11170130 +
  11. Unknown_singleton_1181:112-131 +
  12. Unknown_singleton_1309:454-473 +
  13. Unknown_group_211:5345-5364 +
  14. Unknown_group_523:2571-2590 +
  15. Unknown_group_523:3711-3730 +
  16. Unknown_singleton_3654:1724-1743 +
  17. Unknown_singleton_3806:3327-3346 +
  18. Unknown_singleton_130:4205-4224 +
  19. Unknown_singleton_2:3550-3569 +
  20. Unknown_singleton_2410:1-20 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CTACAGAACCAAATTTGGTATCCACACTCCAGTGATATCGGACCTTGAACGTTTCGTGCAAAATTTCGCCACACTCCCGTCCGCCCATGCAAAGGACGAAAATCTAGGGCATCCACAAATCTCAGAATTTATTAGGGATAGAGCAACCAAATTTTTTAACCGCACTCCCGTTTGATCTTACTATAAAACGTATATCTCAAAATTTCGCCCCACCCCCTTCCGCCCCCACGAAAATCTGTGGCATCCATAAT
**************************************************.....((((........(((.......(((((...........))))).........)))........(((((...........)))))......................)))).....(((((...(((........)))....)))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 M059
embryo
 SRR902011
testis
 SRR902010
ovaries
............................................................................................................................................................................TTATCTTACTATAAAACGTATATC....................................................... 24 1 1 1.00 1 1 0 0 0
...............................................................................................................................................................................TCTTACTATAAAACGTATATCTCAACATT............................................... 29 1 5 0.20 1 0 1 0 0
...........................................................................................................................................................................................................TTCGCCCCACCCCCTTCCGCCC.......................... 22 0 20 0.15 3 0 3 0 0
..........................................................................................AAAGGACGAAAATCTAGGGCATA.......................................................................................................................................... 23 1 7 0.14 1 0 0 1 0
...............................................................................................................................................................................TCTTACCATAAAACGTATATC....................................................... 21 1 7 0.14 1 0 1 0 0
.......................................................................................................................................................................................TAAAACGTATATCTCAAAATTTC............................................. 23 0 20 0.10 2 0 0 0 2
...............................................................................................................................................................................TCTTACTACAAAACGTATA......................................................... 19 1 12 0.08 1 0 0 1 0
..........AAATTTGGTATCCACACTCCA............................................................................................................................................................................................................................ 21 0 15 0.07 1 0 0 1 0
........CCAAATTTGGTATCCACACTCCA............................................................................................................................................................................................................................ 23 0 15 0.07 1 1 0 0 0
....................................ATCGGACCATGAACCCTTC.................................................................................................................................................................................................... 19 3 19 0.05 1 0 0 1 0
...............................GTGATATCGGACCCTGAAA......................................................................................................................................................................................................... 19 2 20 0.05 1 1 0 0 0
.......................................................................................................................................................................................TAAAACGTATATCTCAAAATTTAGCCC......................................... 27 1 20 0.05 1 0 0 1 0
....................................................................................................................................................................................CTATAAAACGTATATCTCAA................................................... 20 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................................................................................................GAAAATCTGTGGCATCCAT... 19 0 20 0.05 1 1 0 0 0
............................................................................................................................................................................................................TCGCCCCACCCCCTTCCGCCCCC........................ 23 0 20 0.05 1 0 0 1 0
............................................................................................................................................................................................CGTATATCTCAAAATTTCGCCC......................................... 22 0 20 0.05 1 0 1 0 0
......AACCAAATTTGGTATCCACACT............................................................................................................................................................................................................................... 22 0 20 0.05 1 1 0 0 0
.....GAACCGAATTTGGTATCCGCACTCC............................................................................................................................................................................................................................. 25 2 20 0.05 1 1 0 0 0
................................................................................................................................................................................................TATCTCAAAATTTCGCCCCACCCC................................... 24 0 20 0.05 1 0 0 1 0
.......................................................................................................................................................................................TAAAACGTATATCTCAAAATTTCGCC.......................................... 26 0 20 0.05 1 0 1 0 0
.........................................................................................................................................................................................AAACGTATATCTCAAAATTTC............................................. 21 0 20 0.05 1 1 0 0 0
......................................................................................................................................................................................................................................AAAATCTGTGGCATCCAT... 18 0 20 0.05 1 1 0 0 0

Anti-sense strand reads

GATGTCTTGGTTTAAACCATAGGTGTGAGGTCACTATAGCCTGGAACTTGCAAAGCACGTTTTAAAGCGGTGTGAGGGCAGGCGGGTACGTTTCCTGCTTTTAGATCCCGTAGGTGTTTAGAGTCTTAAATAATCCCTATCTCGTTGGTTTAAAAAATTGGCGTGAGGGCAAACTAGAATGATATTTTGCATATAGAGTTTTAAAGCGGGGTGGGGGAAGGCGGGGGTGCTTTTAGACACCGTAGGTATTA
**************************************************.....((((........(((.......(((((...........))))).........)))........(((((...........)))))......................)))).....(((((...(((........)))....)))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR902011
testis
 V112
male body		 M040
female body
 GSM343916
embryo
 SRR902012
CNS imaginal disc
 M062
head
...............................................................................................................................................................GGCGTGAGGGCAAACTAGAATGATAT.................................................................. 26 0 1 2.00 2 2 0 0 0 0 0
.................................................................................................................................................................CGTGAGGGCAAACTAGAATGATAT.................................................................. 24 0 1 2.00 2 0 2 0 0 0 0
................................................................................................................................................................CCGTGAGGGCAAACTAGAATGATAT.................................................................. 25 1 1 1.00 1 0 1 0 0 0 0
...........TTAAACCATAGGTGTGAGGTCACTAT...................................................................................................................................................................................................................... 26 0 1 1.00 1 0 0 1 0 0 0
.............AAACCATAGGTGTGAGGTCACTAT...................................................................................................................................................................................................................... 24 0 1 1.00 1 1 0 0 0 0 0
.....................GGTGTGAGGTCACTATAGCCT................................................................................................................................................................................................................. 21 0 3 0.67 2 0 0 2 0 0 0
.......................TGTGAGGTCACTATAGCCTGG............................................................................................................................................................................................................... 21 0 3 0.67 2 0 2 0 0 0 0
...................TAGGTGTGAGGTCACTATAGC................................................................................................................................................................................................................... 21 0 2 0.50 1 1 0 0 0 0 0
...............ACCATAGGTGTGAGGTCACT........................................................................................................................................................................................................................ 20 0 2 0.50 1 0 0 1 0 0 0
...................TAGGTGTGAGGTCACTATAG.................................................................................................................................................................................................................... 20 0 3 0.33 1 0 0 1 0 0 0
.................................................................................................................................................................................................................GGTGGGGGAAGGCGGGGGTGCTTT.................. 24 0 3 0.33 1 1 0 0 0 0 0
..................................................................................................................TGTTTAGGGTCTTAAATATT..................................................................................................................... 20 2 4 0.25 1 0 0 1 0 0 0
...........................................................................................................................................................AATTGGCCTAAGGGAAAACTA........................................................................... 21 3 4 0.25 1 0 0 1 0 0 0
.........................................TGGAACTAGCAAAGCATGTA.............................................................................................................................................................................................. 20 3 4 0.25 1 0 1 0 0 0 0
.....................................................................................................................................................................................................................GGGGAAGGCGGGGGTGCT.................... 18 0 4 0.25 1 0 0 1 0 0 0
........................GTGAGGTCACTCTAGCCTGGAAC............................................................................................................................................................................................................ 23 1 4 0.25 1 0 0 0 1 0 0
..........................................................................................................CCCGTAGGTGTTTAGAGTC.............................................................................................................................. 19 0 20 0.20 4 0 0 4 0 0 0
..............AACCATAGGTGTTAGTTCCCTAT...................................................................................................................................................................................................................... 23 3 5 0.20 1 0 0 1 0 0 0
.........................................................................................................TCCCGTAGGTGTTTAGAGTCT............................................................................................................................. 21 0 7 0.14 1 1 0 0 0 0 0
......................................................................................................................................................................................................................GGGGAGGCGGGGGTGCTT................... 18 1 7 0.14 1 0 0 1 0 0 0
...........................................................................................................CCGTAGGTGTTTAGAGTCTT............................................................................................................................ 20 0 8 0.13 1 0 0 1 0 0 0
....................................................................................................TTAGATCCCGTAGGTGTTTAGAG................................................................................................................................ 23 0 9 0.11 1 1 0 0 0 0 0
......................................................................................................................TAGAGTCTTAAACAATAC................................................................................................................... 18 2 14 0.07 1 0 0 0 1 0 0
.......................................................................................................................................................................................................................GGAAGGAGGAGGTGCTTT.................. 18 2 16 0.06 1 0 0 0 0 1 0
..................................................................................................................................................................................ATGATATGTTGGATATGGAGT.................................................... 21 3 18 0.06 1 0 0 0 0 0 1
....................................................................................................................................................................................................................................GCTTTTAGACACCGTAGGTA... 20 0 18 0.06 1 1 0 0 0 0 0
............................................................................................TCGTGCTGTTACATCCCGT............................................................................................................................................ 19 3 20 0.05 1 0 0 1 0 0 0
..................................................................................................................................................................................................AGAGTTTTAAAGCGGGGTGGG.................................... 21 0 20 0.05 1 1 0 0 0 0 0
...............................................................................................................................................................................................................GGGGTGGGGGAAGGCGGGGGT....................... 21 0 20 0.05 1 0 1 0 0 0 0
.........................................................................................................................................................................................................................CGGGCGGGGGTGCTATTAG............... 19 3 20 0.05 1 0 0 1 0 0 0
..............................................................................................................................................................................................ATATAGAGTTTTAAAGCGGGGT....................................... 22 0 20 0.05 1 0 1 0 0 0 0
..................................................................................................................................................................................................AGAGTTTTAAAGCGGGGTG...................................... 19 0 20 0.05 1 0 1 0 0 0 0
...................................................................................................................................................................................................GAGTTTTAAAGCGGGGTGG..................................... 19 0 20 0.05 1 0 1 0 0 0 0
.....................................................................................................................................................................................................GTTTTAAAGCGGGGTGGG.................................... 18 0 20 0.05 1 0 1 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 2:25190171-25190421 + dps_781 CTACAGA-ACCAAATTTGGTATCCACACTCCAGTGATATCGGACCTTGA-ACGTTTCGTGCAAAATTTCGCCACACTCCCGTCCGCCCATGCAAAGGACGAAAATCTAGGGCATCCACAAATCTCAGAATTTATTAGGGATAGAGCAACCAAATTTTTTAACCGCACTCCCGTTTGATCTTACTATAAAACGTATATCTCAAAATTTCGCCCCACCCCCTTCCGCCCCCACGAAAATCTGTGGCATCCATAAT
droPer2 scaffold_6:496212-496462 + CTACAGA-ACCAAATTTGGTATCCACACTCCAGTGATATCGGACCTTGA-ACGTTTCGTGCAAAATTTCGCCACACTCCCGTCCGCCCATGCAAAGGACGAAAATCTAGGGCATCCACAAATCTCAGAAATTATTAAGGATAGAGCAACCAAATTTGTTATCCGCACTCCCGTTTGATTTTACTATAAAACGTATATCTCAAAATTTCGCCCCACCCCCTTCCGTCCCCACGAAAATCTGTGGCATCCATAAT
droWil2 scf2_1100000004849:47679-47901 + CTAGAGCCACCAAATTTGGTATGCAGTCTCGTGTAGTATGTACAGTTATCTGGTTTGTTTCAAATTTTTGCCACGCTCCCTTCCGCCCACGGAATTAACAAAAAAC-AGGT--------TTTCTTAAAAACTATGTAAGCTACCGACATAAAATTTGGTATGTAAGCTAGC---TTAGCTTAGCAGATATTGACTATTTAAAAATTTTGCCACGCCCATTTCCGCCCCC--GAAAAT----------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
CTACAGA-ACCAAATTTGGTATCCACACTCCAGTGATATCGGACCTTGA-ACGTTTCGTGCAAAATTTCGCCACACTCCCGTCCGCCCATGCAAAGGACGAAAATCTAGGGCATCCACAAATCTCAGAATTTATTAGGGATAGAGCAACCAAATTTTTTAACCGCACTCCCGTTTGATCTTACTATAAAACGTATATCTCAAAATTTCGCCCCACCCCCTTCCGCCCCCACGAAAATCTGTGGCATCCATAATSizeHit 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
.............................................................................................................................................................................................................TTCGCCCCACCCCCTTCCGCCC..........................22200.1530030000000
............................................................................................AAAGGACGAAAATCTAGGGCATA..........................................................................................................................................2370.1410000000010
.........................................................................................................................................................................................TAAAACGTATATCTCAAAATTTC.............................................23200.1020000000200
...........AAATTTGGTATCCACACTCCA.............................................................................................................................................................................................................................21150.0710000000010
.........CCAAATTTGGTATCCACACTCCA.............................................................................................................................................................................................................................23150.0710100000000
......................................................................................................................................................................................CTATAAAACGTATATCTCAA...................................................20200.0510100000000
.......................................................................................................................................................................................................................................GAAAATCTGTGGCATCCAT...19200.0510100000000
..............................................................................................................................................................................................................TCGCCCCACCCCCTTCCGCCCCC........................23200.0510000000010
..............................................................................................................................................................................................CGTATATCTCAAAATTTCGCCC.........................................22200.0510010000000
......A-ACCAAATTTGGTATCCACACT................................................................................................................................................................................................................................22200.0510100000000
..................................................................................................................................................................................................TATCTCAAAATTTCGCCCCACCCC...................................24200.0510000000010
.........................................................................................................................................................................................TAAAACGTATATCTCAAAATTTCGCC..........................................26200.0510010000000
...........................................................................................................................................................................................AAACGTATATCTCAAAATTTC.............................................21200.0510100000000
........................................................................................................................................................................................................................................AAAATCTGTGGCATCCAT...18200.0510100000000
droPer2
CTACAGA-ACCAAATTTGGTATCCACACTCCAGTGATATCGGACCTTGA-ACGTTTCGTGCAAAATTTCGCCACACTCCCGTCCGCCCATGCAAAGGACGAAAATCTAGGGCATCCACAAATCTCAGAAATTATTAAGGATAGAGCAACCAAATTTGTTATCCGCACTCCCGTTTGATTTTACTATAAAACGTATATCTCAAAATTTCGCCCCACCCCCTTCCGTCCCCACGAAAATCTGTGGCATCCATAATSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
........................................................................................................................................................................................ATAAAACGTATATCTCAAAAT................................................21200.051010000
droWil2
CTAGAGCCACCAAATTTGGTATGCAGTCTCGTGTAGTATGTACAGTTATCTGGTTTGTTTCAAATTTTTGCCACGCTCCCTTCCGCCCACGGAATTAACAAAAAAC-AGGT--------TTTCTTAAAAACTATGTAAGCTACCGACATAAAATTTGGTATGTAAGCTAGC---TTAGCTTAGCAGATATTGACTATTTAAAAATTTTGCCACGCCCATTTCCGCCCCC--GAAAAT----------------SizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
...............TTGGTATGCAGTCTCGTGTAGTAT......................................................................................................................................................................................................................24200.7515000150
......................................................................................................................................................AAATTTGGTATGTAAGCTAGC---TTAG...........................................................................2530.67200020
CTAGAGCCACCAAATTTGGTA........................................................................................................................................................................................................................................21200.25505000
...................TATGCAGTCTCGTGTAGTATGTACAGT...............................................................................................................................................................................................................27200.10200020
...................................................................................................................................................................................................ATTTAAAAATTTTGCCACGCC.....................................21200.10202000
................TGGTATGCAGTCTCGTGTAGTA.......................................................................................................................................................................................................................22200.10200200
.......CACCAAATTTGGTATGCAGTCTCGTG............................................................................................................................................................................................................................26200.10201010
.....................TGCAGTCTCGTGTAGTATGTACAGT...............................................................................................................................................................................................................25200.10200020
.....................TGCAGTCTCGTGTAGTATGTACAGTTA.............................................................................................................................................................................................................27200.10200020
.........................................................TTTCAAATTTTTGCCACGCTC...............................................................................................................................................................................21170.06101000
.........................................................................................................................................................TTTGGTATGTAAGCTAGC---TTA............................................................................21200.05101000
........................................................................................................................TTCTTAAAAACTATGTAAGCTACCGA...........................................................................................................26200.05101000
...........................................................................................................................................................................................................ATTTTGCCACGCCCATTTCCGCCCCC--GA....................28200.05101000
.........................................................................................................................TCTTAAAAACTATGTAAGCTACCGACA.........................................................................................................27200.05101000
.........................................................................................................................TCTTAAAAACTATGTAAGCTACCGA...........................................................................................................25200.05101000
.................................................................................................................................................................................................................CCACGCCCATTTCCGCCCCC--GA....................22200.05101000
.........................................................................................................................TCTTAAAAACTATGTAAGCTACCGACAT........................................................................................................28200.05100010
........................................................................................................................TTCTTAAAAACTATGTAAGCTACC.............................................................................................................24200.05101000

Generated: 05/17/2015 at 11:19 PM