ID:

dvi_11454

 Coordinate:

scaffold_12963:12330970-12331120 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-4.3 -4.2 -3.9

Flybase annnotation

CDS [Dvir\GJ23128-cds]; exon [dvir_GLEANR_849:1]; intron [Dvir\GJ23128-in]

Repeatable elements

NameClassFamilyStrand
DMR_DVUnknownUnknown+
DMR_DVUnknownUnknown+
mature
  1. scaffold_9572:6028-6056 -
  2. scaffold_10322:1445-1473 +
  3. scaffold_12936:372022-372050 +
  4. scaffold_12954:1318510-1318538 -
  5. dvi_11454  scaffold_12963:12331021-12331049 -
star
  1. scaffold_9164:854-877 +
  2. scaffold_10216:608-631 +
  3. scaffold_10616:515-538 +
  4. scaffold_11406:332-355 +
  5. scaffold_12643:1794-1817 +
  6. scaffold_12726:1395764-1395787 +
  7. scaffold_12822:2284769-2284792 +
  8. scaffold_12822:2285315-2285338 +
  9. scaffold_12822:2285581-2285604 +
  10. scaffold_12875:10972218-10972241 +
  11. scaffold_12875:14053865-14053888 +
  12. scaffold_12875:14093274-14093297 +
  13. scaffold_12932:1595118-1595141 +
  14. scaffold_12963:9457596-9457619 +
  15. scaffold_12970:5349158-5349181 +
  16. scaffold_13042:1714875-1714898 +
  17. scaffold_13047:199290-199313 +
  18. scaffold_13047:201010-201033 +
  19. scaffold_13047:2878100-2878123 +
  20. scaffold_13195:498-521 +
  21. scaffold_7128:883-906 +
  22. scaffold_9812:1486-1509 +
  23. scaffold_10546:3899-3922 +
  24. scaffold_12526:126-149 +
  25. scaffold_12726:1391727-1391750 +
  26. scaffold_12822:3775330-3775353 +
  27. scaffold_12822:3776282-3776305 +
  28. scaffold_12822:3777593-3777616 +
  29. scaffold_12822:4004461-4004484 +
  30. scaffold_12822:4005292-4005315 +
  31. scaffold_12822:4005960-4005983 +
  32. scaffold_12822:4008874-4008897 +
  33. scaffold_12822:4010176-4010199 +
  34. scaffold_12928:285940-285963 +
  35. scaffold_12928:290351-290374 +
  36. scaffold_12928:294983-295006 +
  37. scaffold_12928:4907703-4907726 +
  38. scaffold_12963:12648462-12648485 +
  39. scaffold_12970:8296865-8296888 +
  40. scaffold_13324:219011-219034 +
  41. scaffold_453:944-967 +
  42. scaffold_4885:331-354 +
  43. scaffold_12726:1393867-1393890 +
  44. scaffold_12726:1397984-1398007 +
  45. scaffold_12726:1398892-1398915 +
  46. scaffold_12875:8001853-8001876 +
  47. scaffold_12928:3136860-3136883 +
  48. scaffold_12928:3140749-3140772 +
  49. scaffold_12928:3337165-3337188 +
  50. scaffold_12928:4719955-4719978 +
  51. scaffold_12928:4726547-4726570 +
  52. scaffold_12942:7016-7039 +
  53. scaffold_12942:9892-9915 +
  54. scaffold_13047:212300-212323 +
  55. scaffold_13047:212813-212836 +
  56. scaffold_13324:223551-223574 +
  57. scaffold_7002:676-699 +
  58. scaffold_8598:954-977 +
  59. scaffold_8993:503-526 +
  60. scaffold_10216:1549-1572 +
  61. scaffold_10312:3407-3430 +
  62. scaffold_11934:509-532 +
  63. scaffold_12822:2285063-2285086 +
  64. scaffold_12875:7036534-7036557 +
  65. scaffold_12875:8801980-8802003 +
  66. scaffold_12875:8802889-8802912 +
  67. scaffold_12932:552414-552437 +
  68. scaffold_12953:1729-1752 +
  69. scaffold_13047:195499-195522 +
  70. scaffold_13047:17914464-17914487 +
  71. scaffold_13246:3606-3629 +
  72. scaffold_13246:9222-9245 +
  73. scaffold_13246:29980-30003 +
  74. scaffold_13246:53468-53491 +
  75. scaffold_13246:54695-54718 +
  76. scaffold_13259:584-607 +
  77. scaffold_689:342-365 -
  78. scaffold_760:865-888 -
  79. scaffold_798:1432-1455 -
  80. scaffold_9572:6070-6093 -
  81. scaffold_12822:2861253-2861276 -
  82. scaffold_12855:728026-728049 -
  83. scaffold_12875:9431093-9431116 -
  84. scaffold_12875:9432039-9432062 -
  85. scaffold_12875:11218609-11218632 -
  86. scaffold_12875:11218867-11218890 -
  87. scaffold_12875:11220164-11220187 -
  88. scaffold_12875:11422286-11422309 -
  89. scaffold_12928:2479140-2479163 -
  90. scaffold_12928:2480925-2480948 -
  91. scaffold_12928:4943173-4943196 -
  92. dvi_11454  scaffold_12963:12331063-12331086 -
  93. scaffold_12970:7208692-7208715 -
  94. scaffold_12970:7744969-7744992 -
  95. scaffold_12970:7745589-7745612 -
  96. scaffold_13042:5053178-5053201 -

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
AAAACGACAGAACTCCCTGCTGAGATATGATTTTTTCAAAATCGAGGTCGGTGCGAAAATCGAAACTTTTTCGATGATTTTTTTTTAATATCTCGGGTAAATAATGTCTGATTTTAAAATGTTATACCTTTTTTAATGCGTACGGATCCCTACCATCAATAAGCTTTCAAACAAATTAAACATCCTTTTGTTAAAAAAAAAATGTTGTAGACAAAAAACCGATTCGTTCGTAATTTTTCGAATTTTTCCGT
************************************************************************************..........(((........(((((((.((((((...........))))))...)).))))))))***************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total SRR060676
9xArg_ovaries_total
 SRR060684
140x9_0-2h_embryos_total
 SRR060655
9x160_testes_total
 SRR060673
9_ovaries_total
 SRR060674
9x140_ovaries_total
 SRR060654
160x9_ovaries_total
 SRR060678
9x140_testes_total
 SRR060656
9x160_ovaries_total
 SRR060670
9_testes_total
 SRR060665
9_females_carcasses_total
 SRR060679
140x9_testes_total
 SRR060687
9_0-2h_embryos_total
 V116
male body
.........................................................................................................................TTATACCTTTTTTAATGCGTACGGATCCC..................................................................................................... 29 0 5 0.40 2 1 0 1 0 0 0 0 0 0 0 0 0 0
.........................................................................................................................TTATACCTTTTTTAATGCGTACGGAT........................................................................................................ 26 0 6 0.17 1 0 0 0 0 1 0 0 0 0 0 0 0 0
.......................................................................................................................TGTTATACCTTTTTTAATGCGTACGGC......................................................................................................... 27 1 6 0.17 1 0 0 0 1 0 0 0 0 0 0 0 0 0
....................................................................................................................................TTAATGCGTACGGATCCCTACCATCAAT........................................................................................... 28 0 7 0.14 1 0 1 0 0 0 0 0 0 0 0 0 0 0
....................................................................................TTAATATCTCGGGTAAATAATGTC............................................................................................................................................... 24 0 20 0.10 2 0 0 0 0 0 0 2 0 0 0 0 0 0
................................................................................................................................................................................TGAACATTCGTTTGTTAAAAAA..................................................... 22 3 13 0.08 1 0 1 0 0 0 0 0 0 0 0 0 0 0
.......................................................................................................................TGTTATACCTGTTTTAATGCGTACG........................................................................................................... 25 1 14 0.07 1 0 0 0 0 0 0 0 1 0 0 0 0 0
............................................................................................................................................................CAATAATCTTTCGAACAAAT........................................................................... 20 2 14 0.07 1 0 0 0 0 0 1 0 0 0 0 0 0 0
.....................................................................................................................................................CTACCATAAATAAGCCTTCT.................................................................................. 20 3 19 0.05 1 0 0 0 0 0 0 0 0 1 0 0 0 0
.....................................................................................................TAATGTCTGATTTTAAAATGTTATACCT.......................................................................................................................... 28 0 20 0.05 1 0 1 0 0 0 0 0 0 0 0 0 0 0
.......................................................................................................................................ATGCGTACGGATCCCTACCATCAAT........................................................................................... 25 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0
..................................TTCAAAATCGAGGTCGGTGCGAA.................................................................................................................................................................................................. 23 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 1 0 0
......................................AAATCGAGGTCGGTGCGAAAATCGAAAC......................................................................................................................................................................................... 28 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 1 0
.....................................................................................TAATATCTCGGGTAAATAATGTCTGA............................................................................................................................................ 26 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 1
..................................................................................................AAATAATGTCTGATTTTAAAATGT................................................................................................................................. 24 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0 0 0 0
........................................................................................................................GTAATAACTATTTTAATGCGT.............................................................................................................. 21 3 20 0.05 1 0 0 0 0 0 0 0 0 0 1 0 0 0
............................................................................................TCGGGTAAATAATGTCTGATTTTA....................................................................................................................................... 24 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0

Anti-sense strand reads

TTTTGCTGTCTTGAGGGACGACTCTATACTAAAAAAGTTTTAGCTCCAGCCACGCTTTTAGCTTTGAAAAAGCTACTAAAAAAAAATTATAGAGCCCATTTATTACAGACTAAAATTTTACAATATGGAAAAAATTACGCATGCCTAGGGATGGTAGTTATTCGAAAGTTTGTTTAATTTGTAGGAAAACAATTTTTTTTTTACAACATCTGTTTTTTGGCTAAGCAAGCATTAAAAAGCTTAAAAAGGCA
*****************************************************************************************************..........(((........(((((((.((((((...........))))))...)).))))))))************************************************************************************ 		Read size # Mismatch Hit Count Total Norm Total M047
female body
 SRR060684
140x9_0-2h_embryos_total
 SRR060654
160x9_ovaries_total
 SRR060681
Argx9_testes_total
 SRR060688
160_ovaries_total
 SRR060676
9xArg_ovaries_total
 SRR060675
140x9_ovaries_total
 SRR060656
9x160_ovaries_total
 SRR060685
9xArg_0-2h_embryos_total
 SRR060655
9x160_testes_total
 SRR060658
140_ovaries_total
 SRR060679
140x9_testes_total
 GSM1528803
follicle cells		 M061
embryo
 SRR060660
Argentina_ovaries_total
 SRR060666
160_males_carcasses_total
 SRR060670
9_testes_total
 SRR060674
9x140_ovaries_total
 SRR060677
Argx9_ovaries_total
 SRR060678
9x140_testes_total
 SRR060686
Argx9_0-2h_embryos_total
 SRR060687
9_0-2h_embryos_total
 V053
head
 V116
male body
................................................................................................................................................................................................................TCTGTTTTTTGGCTAAGCAAGCAT................... 24 0 20 0.90 18 9 0 3 0 3 0 1 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 0 0
...............................................................................................................................................................................................................ATCTGTTTTTTGGCTAAGCAAGCAT................... 25 0 20 0.25 5 4 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.................................................................................................................................................................................................................CTGTTTTTTGGCTAAGCAAGCAT................... 23 0 20 0.20 4 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.....................................................................................ATTATAGAGCCCATTTATTACAGAC............................................................................................................................................. 25 0 20 0.20 4 0 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
...........................................................................................................................................................................................................CAACATCTGTTTTTTGGCTAAGCAAGCAT................... 29 0 20 0.20 4 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.............................................................................................................................................................................................................ACATCTGTTTTTTGGCTAAGCAAGCAT................... 27 0 20 0.20 4 0 0 3 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
...............................................................................................................................................................................................................CTCTGTTTTTTGGCTAAGCAAGCAT................... 25 1 20 0.15 3 1 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0
....................................................................................................................................AATTACGCATGCCTAGGGATGGTAGTT............................................................................................ 27 0 7 0.14 1 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
...................................AGTTTTAGCTCCAGCCACGCTTTTAGC............................................................................................................................................................................................. 27 0 20 0.10 2 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
........................................................................................................................................................................................................TTACAACATCTGTTTTTTGGCTAAGCAA....................... 28 0 20 0.10 2 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..............................................................................................................................................................................................................CATCTGTTTTTTGGCTAAGCAAGCAT................... 26 0 20 0.10 2 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0
............................................................................................................................................................................................................AACATCTGTTTTTTGGCTAAGCAAGCAT................... 28 0 20 0.10 2 0 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
....................................................................................................................................................................................................................TTTTTTGGCTAAGCAAGCAT................... 20 0 20 0.10 2 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
......................................................................................................................................................................AGTTTGTGTTATTTGTAGG.................................................................. 19 2 13 0.08 1 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................................................................................TAGTTATTAGAAACTTTGTT............................................................................. 20 2 16 0.06 1 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0
................................................................................AAAAAATTATAGAGCCCATTTATTACA................................................................................................................................................ 27 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
............................................................................................................................................................................................................CACATCTGTTTTTTGGCTAAGCAAGCAT................... 28 1 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..................................................................................AAAATTATAGAGCCCATTTATTACAGAC............................................................................................................................................. 28 0 20 0.05 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..............................................................................................................................................................................................................CATCTGTTTTTTGGCTAAGCAAG...................... 23 0 20 0.05 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.........................................................................................................................................CGCATGCCTAGGGATGGTAGT............................................................................................. 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
.........CGTGAGGGTCGACTCGATAC.............................................................................................................................................................................................................................. 20 3 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
.......................................................................................................TACAGACTAAAATTTTACAATATGGAAA........................................................................................................................ 28 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
........................................................................................................ACAGACTAAAATTTTACAATATGGA.......................................................................................................................... 25 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................................................................GCATGCCTAGGGATGGTAGTT............................................................................................ 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0
...............................................................................................................................................................................................................ATCTGTTTTTTGGCTAAGCAAGCATT.................. 26 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................................................................GCATGCCTAGGGATGGTAGTTA........................................................................................... 22 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0
...............................................AGCCACGCTTTTAGCTTT.......................................................................................................................................................................................... 18 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................TGAGCCCATTTATTACAGACT............................................................................................................................................ 21 1 20 0.05 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................................................................GCATGCCTAGGGATGGTAGTTAT.......................................................................................... 23 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0
...............................................................................................................................................................................................................GTCTGTTTTTTGGCTAAGCAAGCAT................... 25 1 20 0.05 1 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
....................................................................................AATTATAGAGCCCATTTATTACAGACTA........................................................................................................................................... 28 0 20 0.05 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................................................................AGACTAAAATTTTACAATATGGAAA........................................................................................................................ 25 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.............................................................................................................................................................................................................CCATCTGTTTTTTGGCTAAGCAAGCAT................... 27 1 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1
.............................................CCAGCCACGCTTTTAGCTTTGAAAAAGCT................................................................................................................................................................................. 29 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0
..............................AAAAAAGTTTTAGCTCCAGCC........................................................................................................................................................................................................ 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0
......................................................................................................................................TTACGCATGCCTAGGGATGGTAG.............................................................................................. 23 0 20 0.05 1 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.....................................TTTTAGCTCCAGCCACGCTTT................................................................................................................................................................................................. 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.......................................................................................................................................TACGCATGCCTAGGGATGGTA............................................................................................... 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0
..............................................CAGCCACGCTTTTAGCTTTGA........................................................................................................................................................................................ 21 0 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0
.........................................................................................................................................................................................................TACAACATCTGTTTTTTGGCTAAGCAAG...................... 28 0 20 0.05 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
................................................................................................................................................................................................................TCTGTTTTTTGGGTAAGCAAGCAT................... 24 1 20 0.05 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0
.......................................................................................................................................TACGCATGCCTAGGGATGGTAGTTAT.......................................................................................... 26 0 20 0.05 1 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
.............................................................................................................................................................................................................ACATCTGTTTTTTGGCTAAGCAAG...................... 24 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
..........................................................TAGCTTTGAAAAAGCTACTAAAAAA........................................................................................................................................................................ 25 0 20 0.05 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
........................................TAGCTCCAGCCACGCTTTTAGCTTTG......................................................................................................................................................................................... 26 0 20 0.05 1 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droVir3 scaffold_12963:12330920-12331170 - dvi_11454 AAAA-CGACAGA-ACTCCCTGCTGAGATATGATTTTTTCA-AAATCGAGGTC---GGTGCGAAAAT----------CG-----------------------AAACTTTTTCGATGATTTTTTT-----------------------------TTAATATCTCGGG---------------TAAATA--ATG-TCTGATTTTAAAATGTTATACCTTTTTTAATG-----------------------------------CGTACGGATCCCTACCATCAATAAGCTTTCAA----------------------------------ACA---AATTAAACATCCTTTTGTTA--------AAAAAAAAATGTTGTAG-ACAAAAAACCGATTCGTTCG----------------------TAATTTTTCGAATTTTT----------CCGT
droWil2 scf2_1100000004936:432009-432195 + GCAA-TAAT--A-ATTTCGCGCGGAGATATGTCGTTTTTC-TAACG-GC------G------GAGATATGACGTTTTGAAACGTTTTGAAACGACATATCT-------------------CCGCGCAGAT-----------------------------CACCGGCGATGATATGTCGT-------------------TTTACAACGACATATCTTTTTTTACA-----------------------------------ACGACATATCTCCGCCGTTAA-----------------------------------------------A---AATGCGACATATCTCCGCCA--------GAAAAA-------------------------------------------------------------------------------------
dp5 Unknown_group_200:15953-16043 - CCCT-CAACA-A-GCGCCATGCGAAAATTTGTTTTGTGATGGAATCGATGATAATACTGCCAAAGT----------TA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACTTT----------------------TAATATTTT--TCTTGC----------ATCT
droPer2 scaffold_125:76551-76641 - CCCT-CAACA-A-GCGTCATGCGAAAATTTGTTTTGTGATGGAATAGATGATAATACTGCCAAAGT----------TG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACTTT----------------------TTATATTTT--TCTTGC----------ATCT
droKik1 scf7180000302795:4204-4385 + TAGTTCGGC----------------------------------------------G------GAGATATGTCGCTT----------TAAAGCGACATAACT-------------------CCGCGCGAAA--------ATACAGTGACGTACTTAA---------------TTTGTGGCACAGTTAGCATG-TCTGACTTTGGAACCCTTTTTC------TCCATTAAACATAGCAATATTTACATTAAACAATTTTTATTTA---------------------------A----------------------------------ATA---TATTGATCAATTTCCAACTA--------AATGAA-------------------------------------------------------------------------------------
droEle1 scf7180000489519:6948-6977 - AAAG-TGACCTA-ATTTCGCGGGGAAAAACGA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1 scf7180000773113:915-1114 - TTTT-T---------------------------------------------------------------------------------------------------TTAATCAAAACCCT--------------------------------------------GG---------------TAAATA--GTGTTTGGATTTTGGAATGGCATACTTCGTTGAATT-----------------------------------CTTT----------------ACAAAATTTCGAACAAAGTGGAATTTACAGAAAAAATATCATTTGAAAATTGTTTCGA-------------------------------------AAAAAACCCAAATG-ACAATGCCTGGTGTCTGGTGAAAATCAGCTTGATTATTCGGTTTTTTATTCAAAACTCTGG
droBia1 scf7180000301511:850-985 + AAAAGCGACATA-ACTCCGCGCGGAGATTTGACGTTTTGA-AAA-----------------------------------------------CG--------ACATTTCTTCGACGATTTA--------------------------------------------T---------------TAG----------------------AGACTCATCTTACACTTGAATGAATAATGTATTATGTATAATATATAATATATACGTACATATAC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGC
droTak1 scf7180000415699:18088-18246 + TAAA-CGACTTA-TCTCCGCGCGGAGATAAGGCGTTTGTA-GAAGG-GC------G------GAGCTCTGTCGTTT----------CAAAACGACATATCT-------------------CCCCGCAAATTTTAATAACTACAAAGTTGTTTTTTA---------------TATGTAGA-------------------TACATATTTATATACTCATTTTAATA-----------------------------------TGTACATATTCTT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droYak3 v2_chrUn_1994:6622-6652 - GAAATCGACAAAACCTCCGCTAGGAGGTATG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4644:2265270-2265470 - TTGG-TACGA-A-AT-T-------------------------AT-----------------------------------------------CA--------GTATTTTGTCGATAGCATT--------------------------------------------C---------------AAAATA--ATTGTCCAAGACTAGAATGTCATACCTCGTTGAATT-----------------------------------CGTA----------------ATGAAATTCCCTATCGATCTGTATTTAAACAAAAAAA-------TAAAATTTTT-------------TGCCATTTTTCGCAAATTTTGATGATGGAAAATAGAAAAATG-GCAATTTT----------------------TTATTTTCTGTTTTTTT----------TGGT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droVir3
AAAA-CGACAGA-ACTCCCTGCTGAGATATGATTTTTTCA-AAATCGAGGTC---GGTGCGAAAAT----------CG-----------------------AAACTTTTTCGATGATTTTTTT-----------------------------TTAATATCTCGGG---------------TAAATA--ATG-TCTGATTTTAAAATGTTATACCTTTTTTAATG-----------------------------------CGTACGGATCCCTACCATCAATAAGCTTTCAA----------------------------------ACA---AATTAAACATCCTTTTGTTA--------AAAAAAAAATGTTGTAG-ACAAAAAACCGATTCGTTCG----------------------TAATTTTTCGAATTTTT----------CCGTSizeHit 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
...............................................................................................................................................................................................................TTATACCTTTTTTAATG-----------------------------------CGTACGGATCCC...................................................................................................................................................................................2950.402000001000000000000000000001000000000000000000000000000000000000
...............................................................................................................................................................................................................TTATACCTTTTTTAATG-----------------------------------CGTACGGAT......................................................................................................................................................................................2660.171000000000000000000000000100000000000000000000000000000000000000
.............................................................................................................................................................................................................TGTTATACCTTTTTTAATG-----------------------------------CGTACGGC.......................................................................................................................................................................................2760.171000000000000000000000001000000000000000000000000000000000000000
..........................................................................................................................................................................................................................TTAATG-----------------------------------CGTACGGATCCCTACCATCAAT.........................................................................................................................................................................2870.141000000000000000000000000000000000010000000000000000000000000000
........................................................................................................................................................TTAATATCTCGGG---------------TAAATA--ATG-TC................................................................................................................................................................................................................................................................24200.102000000000000000000000000000020000000000000000000000000000000000
........................................................................................................................................................................................TA--ATG-TCTGATTTTAAAATGTTATACCT...........................................................................................................................................................................................................................................28200.051000000000000000000000000000000000010000000000000000000000000000
.............................................................................................................................................................................................................................ATG-----------------------------------CGTACGGATCCCTACCATCAAT.........................................................................................................................................................................25200.051000000000000000000000000001000000000000000000000000000000000000
....................................TTCA-AAATCGAGGTC---GGTGCGAA...................................................................................................................................................................................................................................................................................................................................................................................................23200.051000000000000000000000000000001000000000000000000000000000000000
.........................................AAATCGAGGTC---GGTGCGAAAAT----------CG-----------------------AAAC.........................................................................................................................................................................................................................................................................................................................................................28200.051000000000000000000000000000000000000010000000000000000000000000
.........................................................................................................................................................TAATATCTCGGG---------------TAAATA--ATG-TCTGA.............................................................................................................................................................................................................................................................26200.051000000000000000000000000000000000000000000000000000000000000010
.....................................................................................................................................................................................AAATA--ATG-TCTGATTTTAAAATGT..................................................................................................................................................................................................................................................24200.051000010000000000000000000000000000000000000000000000000000000000
................................................................................................................................................................TCGGG---------------TAAATA--ATG-TCTGATTTTA........................................................................................................................................................................................................................................................24200.051000000000000000000000000001000000000000000000000000000000000000
droWil2
GCAA-TAAT--A-ATTTCGCGCGGAGATATGTCGTTTTTC-TAACG-GC------G------GAGATATGACGTTTTGAAACGTTTTGAAACGACATATCT-------------------CCGCGCAGAT-----------------------------CACCGGCGATGATATGTCGT-------------------TTTACAACGACATATCTTTTTTTACA-----------------------------------ACGACATATCTCCGCCGTTAA-----------------------------------------------A---AATGCGACATATCTCCGCCA--------GAAAAA-------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
..................................................................................................................................................................................................................TATCTTTTTTTACA-----------------------------------ACGACATATCTCCG.................................................................................................................................................................................2811.00100010
........T--A-ATTTCGCGCGGAGATATGTCG................................................................................................................................................................................................................................................................................................................................................................................................................................23200.40801052
......................................................................................TGAAACGACATATCT-------------------CCGCGCAG..................................................................................................................................................................................................................................................................................................................................23190.16303000
.....TAAT--A-ATTTCGCGCGGAGATATGTCGT...............................................................................................................................................................................................................................................................................................................................................................................................................................27100.10101000
...........A-ATTTCGCGCGGAGATATGTCG................................................................................................................................................................................................................................................................................................................................................................................................................................22200.10200110
......................................................................................TGAAACGACATATCT-------------------CCGCGCAGAT-----------------------------...................................................................................................................................................................................................................................................................................................25180.06100010
....................................................................................TTTGAAACGACATATCT-------------------CCGCGCAGG.................................................................................................................................................................................................................................................................................................................................26190.05101000
..............TTTCGCGCGGAGATATGTCG................................................................................................................................................................................................................................................................................................................................................................................................................................20200.05100001
........................................................................................AAACGACATATCT-------------------CCGCGCA...................................................................................................................................................................................................................................................................................................................................20200.05100010
.................................................................................CGTTTTGAAACGACATATCT-------------------CCG.......................................................................................................................................................................................................................................................................................................................................23200.05101000
..............TTTCGCGCGGAGATATGTCGTT..............................................................................................................................................................................................................................................................................................................................................................................................................................22200.05100010
..............TTTCGCGCGGAGATATGTCGG...............................................................................................................................................................................................................................................................................................................................................................................................................................21200.05110000
........T--A-ATTTCGCGCGGAGATATGTCGTTTA............................................................................................................................................................................................................................................................................................................................................................................................................................27200.05100100
........T--A-ATTTCGCGCGGAGATATGTCGTTT.............................................................................................................................................................................................................................................................................................................................................................................................................................26200.05100010
..................................TTTTTC-TAACG-GC------G------GAGATAT.............................................................................................................................................................................................................................................................................................................................................................................................21200.05101000
................TCGCGCGGAGATATGTCGTTT.............................................................................................................................................................................................................................................................................................................................................................................................................................21200.05100001
...................................................................................................CT-------------------CCGCGCAGAT-----------------------------CACCGGC............................................................................................................................................................................................................................................................................................19200.05110000
dp5
CCCT-CAACA-A-GCGCCATGCGAAAATTTGTTTTGTGATGGAATCGATGATAATACTGCCAAAGT----------TA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACTTT----------------------TAATATTTT--TCTTGC----------ATCTSizeHit 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
No Reads
droPer2
CCCT-CAACA-A-GCGTCATGCGAAAATTTGTTTTGTGATGGAATAGATGATAATACTGCCAAAGT----------TG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CGACTTT----------------------TTATATTTT--TCTTGC----------ATCTSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads
droKik1
TAGTTCGGC----------------------------------------------G------GAGATATGTCGCTT----------TAAAGCGACATAACT-------------------CCGCGCGAAA--------ATACAGTGACGTACTTAA---------------TTTGTGGCACAGTTAGCATG-TCTGACTTTGGAACCCTTTTTC------TCCATTAAACATAGCAATATTTACATTAAACAATTTTTATTTA---------------------------A----------------------------------ATA---TATTGATCAATTTCCAACTA--------AATGAA-------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAAG-TGACCTA-ATTTCGCGGGGAAAAACGA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
TTTT-T---------------------------------------------------------------------------------------------------TTAATCAAAACCCT--------------------------------------------GG---------------TAAATA--GTGTTTGGATTTTGGAATGGCATACTTCGTTGAATT-----------------------------------CTTT----------------ACAAAATTTCGAACAAAGTGGAATTTACAGAAAAAATATCATTTGAAAATTGTTTCGA-------------------------------------AAAAAACCCAAATG-ACAATGCCTGGTGTCTGGTGAAAATCAGCTTGATTATTCGGTTTTTTATTCAAAACTCTGGSizeHit CountTotal NormTotal
No Reads
droBia1
AAAAGCGACATA-ACTCCGCGCGGAGATTTGACGTTTTGA-AAA-----------------------------------------------CG--------ACATTTCTTCGACGATTTA--------------------------------------------T---------------TAG----------------------AGACTCATCTTACACTTGAATGAATAATGTATTATGTATAATATATAATATATACGTACATATAC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATGCSizeHit CountTotal NormTotal
No Reads
droTak1
TAAA-CGACTTA-TCTCCGCGCGGAGATAAGGCGTTTGTA-GAAGG-GC------G------GAGCTCTGTCGTTT----------CAAAACGACATATCT-------------------CCCCGCAAATTTTAATAACTACAAAGTTGTTTTTTA---------------TATGTAGA-------------------TACATATTTATATACTCATTTTAATA-----------------------------------TGTACATATTCTT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASizeHit CountTotal NormTotal
No Reads
droYak3
GAAATCGACAAAACCTCCGCTAGGAGGTATG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------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
No Reads
droEre2
TTGG-TACGA-A-AT-T-------------------------AT-----------------------------------------------CA--------GTATTTTGTCGATAGCATT--------------------------------------------C---------------AAAATA--ATTGTCCAAGACTAGAATGTCATACCTCGTTGAATT-----------------------------------CGTA----------------ATGAAATTCCCTATCGATCTGTATTTAAACAAAAAAA-------TAAAATTTTT-------------TGCCATTTTTCGCAAATTTTGATGATGGAAAATAGAAAAATG-GCAATTTT----------------------TTATTTTCTGTTTTTTT----------TGGTSizeHit CountTotal NormTotalM055
Female-body		M057
Embryo		V060
Head		V040
Embryo		V107
Male-body		V108
Head		GSM1528801
follicle cells
....................................................................................................................................................................................................................................................................................................................................................................CGCAAATTTTGATGATGGAAAATAGA....................................................................26110.0911000000
...........................................................................................................TGTCGATAGCATT--------------------------------------------C---------------AAAATA--ATTG..................................................................................................................................................................................................................................................................24150.0710000010

Generated: 05/17/2015 at 04:38 AM