ID:

dpe_847

Coordinate:

scaffold_16:493906-494056 +

Confidence:

Candidate

Type:

Unknown

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

Predicted structure

-9.1 -8.3

Flybase annnotation

CDS [Dper\GL21185-cds]; exon [dper_GLEANR_3112:3]; intron [Dper\GL21185-in]

Repeatable elements

NameClassFamilyStrand
Hopers2DNAhAT-hobo+
mature
  1. scaffold_21:784680-784699 +
  2. scaffold_22:316410-316429 +
  3. scaffold_55:358249-358268 +
  4. scaffold_176:26791-26810 +
  5. scaffold_2:3473634-3473653 +
  6. scaffold_3:501970-501989 +
  7. scaffold_11:1576752-1576771 +
  8. scaffold_17:1407283-1407302 +
  9. scaffold_60:189518-189537 +
  10. dpe_847  scaffold_16:494029-494048 +
  11. scaffold_16:1063895-1063914 +
  12. scaffold_92:39834-39853 +
  13. scaffold_58:147931-147950 +
  14. scaffold_39:671525-671544 +
  15. dpe_2420  scaffold_49:43370-43389 +
  16. scaffold_95:107272-107291 +
  17. scaffold_146:4717-4736 +
  18. scaffold_193:36936-36955 +
  19. scaffold_105:38917-38936 +
  20. scaffold_9756:504-523 +
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TTCTGACCATAATTCAATACGATCTGGTTCAGATTCTCACGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTAACAGTGACATATCACAGAAAGTTGAGATACAAAATGTCGTTGCTCTAGCTCTTATAGTCTCTGAGCACTAGACGCTCAGAAAGTACGACGGACGGCCGCCTGACGGA
**************************************************............................................................................................((..((...............(((((((..((........))..))).))))))..)).**************************************************
Read size # Mismatch Hit Count Total Norm Total M042
female body
M021
embryo
V057
head
.....................................................................................................................................................................................................ATAGTCTCTGAGCACTAGACGC................................ 22 0 6 0.17 1 1 0 0
....................................................................................................................................................................................................TATAGTCTCTGAGCACTAGACGC................................ 23 0 6 0.17 1 1 0 0
.............................................................................................................................................................................CAAAATGTCGTTGCTCTAGC.......................................................... 20 0 20 0.10 2 2 0 0
................................................................................................................................................................................................CTCTTATAGTCTCTGAGC......................................... 18 0 20 0.05 1 0 1 0
.......................................................................................................................................................CATATGACAGAGGGTTGAG................................................................................. 19 3 20 0.05 1 0 0 1
................................................................................................................................................................................AATGTCGTTGCTCTAGCTCTTA..................................................... 22 0 20 0.05 1 1 0 0

Anti-sense strand reads

AAGACTGGTATTAAGTTATGCTAGACCAAGTCTAAGAGTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCATTGTCACTGTATAGTGTCTTTCAACTCTATGTTTTACAGCAACGAGATCGAGAATATCAGAGACTCGTGATCTGCGAGTCTTTCATGCTGCCTGCCGGCGGACTGCCT
**************************************************............................................................................................((..((...............(((((((..((........))..))).))))))..)).**************************************************
Read size # Mismatch Hit Count Total Norm Total M021
embryo
V042
embryo
M042
female body
......................CCACCAAGTCTAAGAGTG................................................................................................................................................................................................................... 18 2 4 0.25 1 1 0 0
....CTGGTATTTAGTTATGATA.................................................................................................................................................................................................................................... 19 2 4 0.25 1 0 1 0
....................................................................................................................................................................................AGCAACGAGATCGAGAATATCAGAGAC............................................ 27 0 20 0.05 1 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_16:493856-494106 + dpe_847 TTCTGACCATAATTCAATACGATCTGGTTCAGATTCTCACGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTAACAGTGACATATCACAGAAA--GTTGAGATACAAAATGTCGTTGCTCTAGCTCTTATAGTCTCTGAGCACTAGACGCTCAGAAAGTACGAC----GGACGGCC-GCCTGACGGA---
dp5 4_group4:6368062-6368170 - ---------------------------------------------------------------------------------------------------------------------------------------------GTAACAGTGACATATCACAG-AA--GTTGGGATACAAAATGTCGTTGCTCTAGCTCTTATAGTCTCTGAGCACTAGGCGCTCAGAAGGACGGAC----GGACGGCC-GCCTGACGGA---
droWil2 scf2_1100000003402:7342-7449 - ----------------------------------------------------------------------------------------------------------------------------------------------TAACTGT-ACATACCACAA-GA--GTCTACATACCAAATTTGGTGGCTCTAGCTCTTATAGTCTCCGAGATCTAGGTGTTCATACGGACAAAC----GGACGCACGGACGGACGGA---
droVir3 scaffold_12723:629879-629978 + ---------------------------------------------------------------------------------------------------------------------------------------------A--------------------GAACACCTACATCTAAAATTTCAAGTCTCTAGATCTTATAGGTTCTGAGATCCTTGCGTTCATACATACGGACAAACGGATGGACGGACAGACAGACGG
droRho1 scf7180000774253:7070-7163 - ---------------------------------------------------------------------------------------------------------------------------------------------A--------------------AA--ATCTACATGCAAAATGCCAATCTTCTAGCTTTTATAGTTTCCGAGATCTCAGCGTTCATACGGACAGAC----ATACGGACAGACGGACATATAT
droTak1 scf7180000415198:41814-41897 - ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGCAAAATGTCAATCTTCTAGCTTTTATAGTTTCCGAGATCTCAGCGTTCATACAGACAGAC----AGACAGAA-GAAGAATATATAT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
TTCTGACCATAATTCAATACGATCTGGTTCAGATTCTCACGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTAACAGTGACATATCACAGAAA--GTTGAGATACAAAATGTCGTTGCTCTAGCTCTTATAGTCTCTGAGCACTAGACGCTCAGAAAGTACGAC----GGACGGCC-GCCTGACGGA---SizeHit CountTotal NormTotalM021
Embryo
M042
Female-body
V042
Embryo
V050
Head
V057
Head
V111
Male-body
.......................................................................................................................................................................................................ATAGTCTCTGAGCACTAGACGC........................................2260.171010000
......................................................................................................................................................................................................TATAGTCTCTGAGCACTAGACGC........................................2360.171010000
...............................................................................................................................................................................CAAAATGTCGTTGCTCTAGC..................................................................20200.102020000
..................................................................................................................................................................................................CTCTTATAGTCTCTGAGC.................................................18200.051100000
..................................................................................................................................................................................AATGTCGTTGCTCTAGCTCTTA.............................................................22200.051010000
dp5
---------------------------------------------------------------------------------------------------------------------------------------------GTAACAGTGACATATCACAG-AA--GTTGGGATACAAAATGTCGTTGCTCTAGCTCTTATAGTCTCTGAGCACTAGGCGCTCAGAAGGACGGAC----GGACGGCC-GCCTGACGGA---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
.....................................................................................................................................................................................................TTATAGTCTCTGAGCACTAGGCGC........................................24201.953900000000390
....................................................................................................................................................TGACATATCACAG-AA--GTTGGGATACAA...................................................................................2711.0010100000000
.....................................................................................................................................................................................................TTATAGTCTCTGAGCACTAGGCGCT.......................................25200.4590810000000
........................................................................................................................................................................................GTTGCTCTAGCTCTTATAGTC........................................................21200.1530000003000
............................................................................................................................................................................ATACAAAATGTCGTTGCTCTA....................................................................21200.1020200000000
........................................................................................................................................................................................................TAGTCTCTGAGCACTAGGCGCTCA.....................................24200.0510100000000
........................................................................................................................................................................................................TAGTCTCTGAGCACTAGGCGCTC......................................23200.0510100000000
.........................................................................................................................................................................................................AGTCTCTGAGCACTAGGCGCTCA.....................................23200.0510100000000
...................................................................................................................................................................................................TCTTATAGTCTCTGAGCACTT.............................................21200.0510100000000
...................................................................................................................................................................................................TCTTATAGTCTCTGAGCACTA.............................................21200.0510100000000
.....................................................................................................................................................................................................TTATAGTCTCTGAGCACTAGGCGCTC......................................26200.0510000000010
......................................................................................................................................................................................................TATAGTCTCTGAGCACTAGGCGCT.......................................24200.0510100000000
....................................................................................................................................................................................................CTTATAGTCTCTGAGCACTAGGCGCT.......................................26200.0510010000000
droWil2
----------------------------------------------------------------------------------------------------------------------------------------------TAACTGT-ACATACCACAA-GA--GTCTACATACCAAATTTGGTGGCTCTAGCTCTTATAGTCTCCGAGATCTAGGTGTTCATACGGACAAAC----GGACGCACGGACGGACGGA---SizeHit CountTotal NormTotalM020
Head
M045
Female-body
V117
Male-body
V118
Embryo
V119
Head
...............................................................................................................................................................................................TAGCTCTTATAGTCTCCGAGATCTAG............................................26200.05100010
...............................................................................................................................................................................................................CGAGATCTAGGTGTTCATACGG................................22200.05100010
droVir3
---------------------------------------------------------------------------------------------------------------------------------------------A--------------------GAACACCTACATCTAAAATTTCAAGTCTCTAGATCTTATAGGTTCTGAGATCCTTGCGTTCATACATACGGACAAACGGATGGACGGACAGACAGACGGSizeHit 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
................................................................................................................................................................................................................................TACATACGGACAAACGGATGGAC..............2312.002000000000000000000000000000010000100000000000000000000000000000
..........................................................................................................................................................................................................................................CAAACGGATGGACGGACAGACAGAC..2511.001000000000000000000000000000000100000000000000000000000000000000
...................................................................................................................................................................................................................................ATACGGACAAACGGATGGAC..............2011.001000000000000000000000000000000010000000000000000000000000000000
................................................................................................................................................................................................................................TACATACGGACAAACGGATGGACG.............2411.001000000000000000000000000000000100000000000000000000000000000000
....................................................................................................................................................................................................................................TACGGACAAACGGATGGACG.............2011.001000000000000000000001000000000000000000000000000000000000000000
.................................................................................................................................................................................................................................ACATACGGACAAACGGATGG................2011.001000000000000000000000000000010000000000000000000000000000000000
.....................................................................................................................................................................................TTCAAGTCTCTAGATCTTATAGGT........................................................2440.753000010000000100000000000001000000000000000000000000000000000000
.....................................................................................................................................................................................TTCAAGTCTCTAGATCTTATAGGTT.......................................................2540.753000000000000000000000000200010000000000000000000000000000000000
.......................................................................................................................................................................................CAAGTCTCTAGATCTTATAGGTTC......................................................2460.332000000000000000000000000000001010000000000000000000000000000000
......................................................................................................................................................................................................................CTTGCGTTCATACATACGGACA.........................22200.204000000000000000000000000000040000000000000000000000000000000000
.............................................................................................................................................................................................TCTAGATCTTATAGGTTCTGA...................................................21200.204000000100000000000000001001000000000100000000000000000000000000
........................................................................................................................................................................................AAGTCTCTAGATCTTATAGGTTCT.....................................................2460.171000000000000000000000000000000000000000100000000000000000000000
..................................................................................................................................................................................................ATCTTATAGGTTCTGAGATCC..............................................21200.102000000000000000000000000000000000020000000000000000000000000000
...................................................................................................................................................................................................TCTTATAGGTTCTGAGATCCTTGCGT........................................26200.102000001010000000000000000000000000000000000000000000000000000000
....................................................................................................................................................................................................................TCCTTGCGTTCATACATACGGACA.........................24200.102000000000000000000000000000000000200000000000000000000000000000
................................................................................................................................................................................................AGATCTTATAGGTTCTGAGAT................................................21200.102000000000020000000000000000000000000000000000000000000000000000
.....................................................................................................................................................................................................TTATAGGTTCTGAGATCCTTGCGT........................................24200.102000000000000000000000000000002000000000000000000000000000000000
....................................................................................................................................................................................................................TCCTTGCGTTCATACATACGGACAAACG.....................28160.061000000000000000000000000000000010000000000000000000000000000000
........................................................................................................................................................................................................TAGGTTCTGAGATCCTTGCG.........................................20200.051001000000000000000000000000000000000000000000000000000000000000
....................................................................................................................................................................................................CTTATAGGTTCTGAGATCCTTG...........................................22200.051000000000000000010000000000000000000000000000000000000000000000
.................................................................................................................................................................................................................AGATCCTTGCGTTCATACATACGGACA.........................27200.051000000000000000000000000000010000000000000000000000000000000000
.................................................................................................................................................................................................................AGATCCTTGCGTTCATACATACGGA...........................25200.051000000000000000000000000001000000000000000000000000000000000000
.....................................................................................................................................................................................................TTATAGGTTCTGAGATCCTTGCGTTC......................................26200.051000000000000000000000000000001000000000000000000000000000000000
...............................................................................................................................................................................................TAGATCTTATAGGTTCTGAGA.................................................21200.051000000000000000000000000000000100000000000000000000000000000000
........................................................................................................................................................................................................TAGGTTCTGAGATCCTTGCGTTCATACA.................................28200.051000000000000000000000000000010000000000000000000000000000000000
.......................................................................................................................................................................................................ATAGGTTCTGAGATCCTTGC..........................................20200.051000000000000000000000010000000000000000000000000000000000000000
......................................................................................................................................................................................................TATAGGTTCTGAGATCCTTGCGTTC......................................25200.051000000000000000000000000000000000010000000000000000000000000000
........................................................................................................................................................................................................TAGGTTCTGAGATCCTTGCGTTCATA...................................26200.051000000000000000000000000000001000000000000000000000000000000000
droRho1
---------------------------------------------------------------------------------------------------------------------------------------------A--------------------AA--ATCTACATGCAAAATGCCAATCTTCTAGCTTTTATAGTTTCCGAGATCTCAGCGTTCATACGGACAGAC----ATACGGACAGACGGACATATATSizeHit CountTotal NormTotal
No Reads
droTak1
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGCAAAATGTCAATCTTCTAGCTTTTATAGTTTCCGAGATCTCAGCGTTCATACAGACAGAC----AGACAGAA-GAAGAATATATATSizeHit CountTotal NormTotal
No Reads

Generated: 06/08/2015 at 03:19 PM