ID:

dwi_2156

 Coordinate:

scf2_1100000004820:38977-39042 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

No conservation details.

-12.0

Flybase annnotation

CDS [Dwil\GK23619-cds]; exon [dwil_GLEANR_7474:1]; exon [dwil_GLEANR_7474:2]; CDS [Dwil\GK23619-cds]; intron [Dwil\GK23619-in]

Repeatable elements

NameClassFamilyStrand
CR1-1_DWilLINECR1+
mature
  1. scf2_1100000003055:474-492 +
  2. scf2_1100000003553:14290-14308 +
  3. scf2_1100000002207:3536-3554 +
  4. scf2_1100000004550:101-119 +
  5. scf2_1100000004558:984818-984836 +
  6. scf2_1100000014757:880-898 +
  7. scf2_1100000004820:14219-14237 +
  8. dwi_2156  scf2_1100000004820:38989-39007 +
  9. scf2_1100000004869:12262-12280 +
  10. scf2_1100000004888:212826-212844 +
  11. scf2_1100000004943:123050-123068 +
  12. scf2_1100000004933:221300-221318 +
  13. scf2_1100000004954:621051-621069 +
  14. scf2_1100000004954:1738489-1738507 +
  15. scf2_1100000004958:926826-926844 +
  16. scf2_1100000004961:2954791-2954809 +
  17. scf2_1100000004967:3911586-3911604 +
  18. scf2_1100000004968:1161491-1161509 +
  19. scf2_1100000004968:2596202-2596220 +
  20. scf2_1100000012786:624-642 +
  21. scf2_1100000002956:1159-1177 +
  22. scf2_1100000002364:82-100 +
  23. scf2_1100000014537:787-805 +
  24. scf2_1100000004628:17229-17247 +
  25. scf2_1100000004634:137840-137858 +
  26. scf2_1100000004659:729-747 +
  27. scf2_1100000004813:49722-49740 +
  28. scf2_1100000004888:443916-443934 +
  29. scf2_1100000004947:1285802-1285820 +
  30. scf2_1100000004947:1295665-1295683 +
  31. scf2_1100000004909:587796-587814 +
  32. scf2_1100000004913:25274-25292 +
  33. scf2_1100000004936:1060530-1060548 +
  34. scf2_1100000004953:1340697-1340715 +
  35. scf2_1100000004954:79812-79830 +
  36. scf2_1100000004954:505007-505025 +
  37. scf2_1100000004961:1714132-1714150 +
  38. scf2_1100000004963:3233437-3233455 +
  39. scf2_1100000004967:2844715-2844733 +
  40. scf2_1100000004968:23300-23318 +
  41. scf2_1100000002782:888-906 +
  42. scf2_1100000008091:827-845 +
  43. scf2_1100000008233:898-916 +
  44. scf2_1100000005687:627-645 +
  45. scf2_1100000003190:5134-5152 +
  46. scf2_1100000003231:756-774 +
  47. scf2_1100000003232:288-306 +
  48. scf2_1100000001719:793-811 +
  49. scf2_1100000013704:532-550 +
  50. scf2_1100000004538:85409-85427 +
  51. scf2_1100000014778:734-752 +
  52. scf2_1100000004839:115727-115745 +
  53. scf2_1100000004943:5036883-5036901 +
  54. scf2_1100000004909:35825-35843 +
  55. scf2_1100000004909:209500-209518 +
  56. scf2_1100000004909:703941-703959 +
  57. scf2_1100000004913:67387-67405 +
  58. scf2_1100000004958:1179921-1179939 +
  59. scf2_1100000004961:82713-82731 +
  60. scf2_1100000000448:990-1008 +
  61. scf2_1100000001194:640-658 -
  62. scf2_1100000004180:844-862 -
  63. scf2_1100000000775:114-132 -
  64. scf2_1100000004852:612666-612684 -
  65. scf2_1100000004888:523930-523948 -
  66. scf2_1100000004888:548816-548834 -
  67. scf2_1100000004947:20518-20536 -
  68. scf2_1100000004913:197818-197836 -
  69. scf2_1100000004936:51520-51538 -
  70. scf2_1100000004936:738790-738808 -
  71. scf2_1100000004936:1024110-1024128 -
  72. scf2_1100000004949:868043-868061 -
  73. scf2_1100000004949:928321-928339 -
  74. scf2_1100000004954:1423778-1423796 -
  75. scf2_1100000004956:374553-374571 -
  76. scf2_1100000004958:1581073-1581091 -
  77. scf2_1100000004961:269959-269977 -
  78. scf2_1100000004961:2985408-2985426 -
  79. scf2_1100000004967:1732103-1732121 -
  80. scf2_1100000004968:3298369-3298387 -
  81. scf2_1100000002462:872-890 +
  82. scf2_1100000013629:755-773 +
  83. scf2_1100000006077:683-701 +
  84. scf2_1100000002177:2402-2420 +
  85. scf2_1100000006551:788-806 +
  86. scf2_1100000009503:679-697 +
  87. scf2_1100000014838:1246-1264 +
  88. scf2_1100000004891:27244-27262 +
  89. scf2_1100000004904:38009-38027 +
  90. scf2_1100000004954:71510-71528 +
  91. scf2_1100000004954:1772281-1772299 +
  92. scf2_1100000004958:185200-185218 +
  93. scf2_1100000004958:2064188-2064206 +
  94. scf2_1100000004967:2690074-2690092 +
  95. scf2_1100000004967:4238271-4238289 +
  96. scf2_1100000004968:2007324-2007342 +
star

Sense Strand Reads

##################################################------------------------------------------------------------------##################################################
AGTTCGACAGGAAGTTCATCTGGAAGAAGGGAATCTGCTTGGGCTCGCGCGTAACAGGCTTTGTCCTGGTGTCGTAGGGGCCACTTGAATCTTGATCGTCAACGTCCGCTATTAAGGGAAGAAGGGACTATAGGCAGAATTGTCGCCAGCCTGTTTTGTTGCTGAA
**************************************************.........((((..........((((((((...((((..........)))).)))).))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V117
male body		 V118
embryo
 M020
head
 V119
head
...........................................CTCGCGCGTAACAGGCTTTGTCCT................................................................................................... 24 0 20 0.30 6 6 0 0 0 0
.......................................................................................................................AGAAGGGACTATAGGCAGAA........................... 20 0 4 0.25 1 0 1 0 0 0
..............................................GCGCGTAACAGGCTTTGTCC.................................................................................................... 20 0 20 0.20 4 4 0 0 0 0
...................................TGCTTGGGCTCGCGCGTAACAGG............................................................................................................ 23 0 20 0.20 4 3 0 1 0 0
..............................................................GTCCTGGTGTCGTAGGGGC..................................................................................... 19 0 20 0.10 2 0 0 0 2 0
...........................................................TTTGTCCTGGTGTCGTAGGGGCC.................................................................................... 23 0 20 0.10 2 2 0 0 0 0
..................................CTGCTTGGGCTCGCGCGTAACA.............................................................................................................. 22 0 20 0.10 2 2 0 0 0 0
........................................GGGCTCGCGCGTAACAGGCTA......................................................................................................... 21 1 20 0.05 1 1 0 0 0 0
........................................GGGCTCGCGCGTAACAGGCT.......................................................................................................... 20 0 20 0.05 1 0 0 0 0 1
...............................................................TCCTGGTGTCGTAGGGGCC.................................................................................... 19 0 20 0.05 1 0 0 0 0 1
AGGTTGAGAGGAAGTTCAT................................................................................................................................................... 19 3 20 0.05 1 1 0 0 0 0
...........................................CTCGCGCGTAACAGGCTTTGT...................................................................................................... 21 0 20 0.05 1 1 0 0 0 0
..................................................GTAACAGGCTTCGTCCTGGTGTCGTA.......................................................................................... 26 1 20 0.05 1 1 0 0 0 0
..................................................................TGGTGTCGTATGGGCCACTTGAAT............................................................................ 24 1 20 0.05 1 0 0 1 0 0
...................................TGCTTGGGCTCGCGCGTAACA.............................................................................................................. 21 0 20 0.05 1 0 0 1 0 0
..............................................................................................................AATAGGGTAAGAAGGGACT..................................... 19 3 20 0.05 1 1 0 0 0 0
.................................................................................................................AAGGGAAGAAGGGAGTAG................................... 18 2 20 0.05 1 0 1 0 0 0
......................................TTGGGCTCGCGCGTAACAGGCTTTG....................................................................................................... 25 0 20 0.05 1 0 0 1 0 0
........................................................GGCTTTGTCCTGGTGTCGTAGGG....................................................................................... 23 0 20 0.05 1 1 0 0 0 0
............................................................TTGTCCTGGTGTCGTAGGGGC..................................................................................... 21 0 20 0.05 1 0 0 1 0 0

Anti-sense strand reads

TCAAGCTGTCCTTCAAGTAGACCTTCTTCCCTTAGACGAACCCGAGCGCGCATTGTCCGAAACAGGACCACAGCATCCCCGGTGAACTTAGAACTAGCAGTTGCAGGCGATAATTCCCTTCTTCCCTGATATCCGTCTTAACAGCGGTCGGACAAAACAACGACTT
**************************************************.........((((..........((((((((...((((..........)))).)))).))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V117
male body		 V118
embryo
............................................................................................ACTACTAGTTGCATGCGATAATT................................................... 23 3 1 1.00 1 0 1 0
.............................................................ACAGGACCACAGCATCCCCGGTGAACTT............................................................................. 28 0 20 0.65 13 10 0 3
......................................................................................................................................GTCTTAACAGCGGTCGGACAAA.......... 22 0 5 0.40 2 0 2 0
.................................................................................................................................TATCCGTCTTTGCAGTGGTCGG............... 22 3 4 0.25 1 1 0 0
.......................................................TCCGAAACAGGACCACAGCAT.......................................................................................... 21 0 20 0.25 5 5 0 0
..............................................CGCGCATTGTCCGAAACAGGACCAC............................................................................................... 25 0 20 0.15 3 3 0 0
....................................................................................AACTTAGAACTAGCAGCC................................................................ 18 2 11 0.09 1 1 0 0
................................................................................................................................................CGGTCGGGCAAACCCACGAC.. 20 3 19 0.05 1 1 0 0
................................TAGACGAACCCGAGCGCGCATTGT.............................................................................................................. 24 0 20 0.05 1 1 0 0
.............................................GCGCGCATTGTCCGAAACAGGAC.................................................................................................. 23 0 20 0.05 1 1 0 0
.................................................................................................GAGTTGCAGGCGGTGATTC.................................................. 19 3 20 0.05 1 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droWil2 scf2_1100000004820:38927-39092 + dwi_2156 AGTTCGACAGGAAGTTCATCTGGAAGAAGGGAATCTGCTTGGGCTCGCGCGTAACAGGCTTTGTCCTGGTGTCGTAGGGGCCACTTGAATCTTGATCGTCAACGTCCGCTATTAAGGGAAGAAGGGACTATAGGCAGAATTGTCGCCAGCCTGTTTTGTTGCTGAA

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droWil2
AGTTCGACAGGAAGTTCATCTGGAAGAAGGGAATCTGCTTGGGCTCGCGCGTAACAGGCTTTGTCCTGGTGTCGTAGGGGCCACTTGAATCTTGATCGTCAACGTCCGCTATTAAGGGAAGAAGGGACTATAGGCAGAATTGTCGCCAGCCTGTTTTGTTGCTGAASizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
...........................................CTCGCGCGTAACAGGCTTTGTCCT...................................................................................................24200.30606000
.......................................................................................................................AGAAGGGACTATAGGCAGAA...........................2040.25100100
..............................................GCGCGTAACAGGCTTTGTCC....................................................................................................20200.20404000
...................................TGCTTGGGCTCGCGCGTAACAGG............................................................................................................23200.20403010
..............................................................GTCCTGGTGTCGTAGGGGC.....................................................................................19200.10220000
...........................................................TTTGTCCTGGTGTCGTAGGGGCC....................................................................................23200.10202000
..................................CTGCTTGGGCTCGCGCGTAACA..............................................................................................................22200.10202000
........................................GGGCTCGCGCGTAACAGGCTA.........................................................................................................21200.05101000
........................................GGGCTCGCGCGTAACAGGCT..........................................................................................................20200.05100001
...............................................................TCCTGGTGTCGTAGGGGCC....................................................................................19200.05100001
...........................................CTCGCGCGTAACAGGCTTTGT......................................................................................................21200.05101000
...................................TGCTTGGGCTCGCGCGTAACA..............................................................................................................21200.05100010
......................................TTGGGCTCGCGCGTAACAGGCTTTG.......................................................................................................25200.05100010
........................................................GGCTTTGTCCTGGTGTCGTAGGG.......................................................................................23200.05101000
............................................................TTGTCCTGGTGTCGTAGGGGC.....................................................................................21200.05100010

Generated: 05/18/2015 at 03:27 AM