ID:

dwi_273

 Coordinate:

scf2_1100000002710:8682-8832 -

 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.

-12.9 -12.3 -12.3

Flybase annnotation

CDS [Dwil\GK14336-cds]; exon [dwil_GLEANR_1466:2]; intron [Dwil\GK14336-in]

Repeatable elements

NameClassFamilyStrand
AT_richLow_complexityLow_complexity+
mature
  1. dwi_273  scf2_1100000002710:8698-8720 -
  2. scf2_1100000001348:3645-3667 -
  3. scf2_1100000002818:14-36 +
  4. scf2_1100000005512:961-983 -
  5. scf2_1100000011826:560-582 -
  6. scf2_1100000004528:43255-43277 +
  7. scf2_1100000004648:4221-4243 -
  8. scf2_1100000004648:32790-32812 +
  9. scf2_1100000004779:21152-21174 -
  10. scf2_1100000004867:21627-21649 +
  11. scf2_1100000004888:29015-29037 -
  12. scf2_1100000004888:187973-187995 +
  13. scf2_1100000004891:19309-19331 +
  14. scf2_1100000004941:129662-129684 -
  15. scf2_1100000004929:21305-21327 -
  16. scf2_1100000004953:81633-81655 -
  17. scf2_1100000004953:898876-898898 -
  18. scf2_1100000004959:113726-113748 +
  19. scf2_1100000004969:172073-172095 -
  20. scf2_1100000004969:262058-262080 +
star
  1. scf2_1100000002617:887-911 +
  2. dwi_273  scf2_1100000002710:8774-8798 -
  3. scf2_1100000001348:3746-3770 -
  4. scf2_1100000008346:452-476 +
  5. scf2_1100000001702:1690-1714 -
  6. scf2_1100000004960:118556-118580 -
  7. scf2_1100000003515:17265-17289 +
  8. scf2_1100000002002:467-491 +
  9. scf2_1100000002102:3088-3112 +
  10. scf2_1100000003982:2433-2457 +
  11. scf2_1100000011826:637-661 -
  12. scf2_1100000011837:553-577 -
  13. scf2_1100000004561:10133-10157 +
  14. scf2_1100000004649:51382-51406 +
  15. scf2_1100000009676:1053-1077 +
  16. scf2_1100000004779:21253-21277 -
  17. scf2_1100000004915:14137-14161 +
  18. scf2_1100000004932:26-50 +
  19. scf2_1100000004969:261979-262003 +
  20. scf2_1100000012745:536-560 +

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TTTATATTTTCTGACCCCTCCTTTGCAGAATTTATTAAAAATGAAATAAAATATATATAGGCATTGGTCAAATTGCACATCAATATCATAGTCTATCGGTTTACCGTAGCCATCTTTACACAGTATCGCGTAGCCTACTGCTTATCGCTTATACTACGACCCCGAGTCCTTACTAATATACTAGCAATGGGCGTTCATTAGATAAACCATCGTCGCAAAGCCTTTGTGACGAATTCGGATTAGACACCGGT
************************************************************************************....(((((((.(((....))))))............(((((.(((.(((.....)))...)))..)))))..(((.....)))...........))))..****************************************************************** 		Read size # Mismatch Hit Count Total Norm Total V118
embryo
 M020
head
 M045
female body
.............................................................................................................CCATCGTGACACTGTATCGC.......................................................................................................................... 20 3 8 0.13 1 0 1 0
................................................................................................................................................................................................................................TGTGACGAATTCGGATTAGACACCGG. 26 0 20 0.10 2 2 0 0
..................................................................................................................................................................CGAGTCCTTACTAATATACTAGC.................................................................. 23 0 20 0.05 1 0 0 1
................................................................................................................................................................................................................................TGTGACGAATTCGGATTAGACGCCGG. 26 1 20 0.05 1 1 0 0
................................................................................................................................................................................................................................TGTGACGAATTCGGATTAGAAACCGG. 26 1 20 0.05 1 1 0 0
....................................................................................ATCATAGTCTATCGGTTTACCGTAG.............................................................................................................................................. 25 0 20 0.05 1 0 0 1
...............................................................................................................................................................................................................................TTGTGACGAATTCGGATTAGACACCGG. 27 0 20 0.05 1 1 0 0

Anti-sense strand reads

AAATATAAAAGACTGGGGAGGAAACGTCTTAAATAATTTTTACTTTATTTTATATATATCCGTAACCAGTTTAACGTGTAGTTATAGTATCAGATAGCCAAATGGCATCGGTAGAAATGTGTCATAGCGCATCGGATGACGAATAGCGAATATGATGCTGGGGCTCAGGAATGATTATATGATCGTTACCCGCAAGTAATCTATTTGGTAGCAGCGTTTCGGAAACACTGCTTAAGCCTAATCTGTGGCCA
******************************************************************....(((((((.(((....))))))............(((((.(((.(((.....)))...)))..)))))..(((.....)))...........))))..************************************************************************************ 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V118
embryo
...............................................................................................................................................................GGGGCTCAGGAATGATTATATGATCGT................................................................. 27 0 18 3.67 66 56 10
................................................................................................................................................................GGGCTCAGGAATGATTATATGATCGT................................................................. 26 0 19 1.32 25 16 9
............................................................................................GATAGCCAAATGGCATCGGTAGAAAT..................................................................................................................................... 26 0 20 0.85 17 6 11
...............................................................................................AGCCAAATGGCATCGGTAGAAATGTGT................................................................................................................................. 27 0 8 0.75 6 2 4
............................................................................................................................................................................................................................GGAAACACTGCTTAAGCCTAATCTGT..... 26 0 20 0.50 10 6 4
.........GGACTGGGAACGAAACGTCTT............................................................................................................................................................................................................................. 21 3 2 0.50 1 1 0
...........................................................................................AGATAGCCAAATGGCATCGGTAGAAAT..................................................................................................................................... 27 0 20 0.45 9 3 6
.................................................................................................................................................................GGCTCAGGAATGATTATATGATCGT................................................................. 25 0 19 0.37 7 5 2
..........................................................................................CAGATAGCCAAATGGCATCGGTAGAAAT..................................................................................................................................... 28 0 19 0.26 5 4 1
...............................................................................................................................................................GGGGCTCAGGAATGATTATATGATCG.................................................................. 26 0 19 0.21 4 4 0
..........................................................................................................................................................ATGCTGGGGCTCAGGAATGATTATAT....................................................................... 26 0 20 0.20 4 0 4
............................................................................................................................................................................GATTATATGATCGTTACCCGCAAGT...................................................... 25 0 14 0.14 2 0 2
...............................................................................................AGCCAAATGGCATCGGTAGAAATGT................................................................................................................................... 25 0 14 0.14 2 2 0
................................................................................................GCCAAATGGCATCGGTAGAAATGTGT................................................................................................................................. 26 0 8 0.13 1 0 1
..........................................................................................................................CGTAGAGAATCGGATGACG.............................................................................................................. 19 3 18 0.11 2 2 0
................................................................................................................................................................................................CAAGTAAACTATTTGGTAGCAGCGTT................................. 26 1 14 0.07 1 0 1
...........................................................................................................................................CGAATAGCGAATATGATGCTGGGGC....................................................................................... 25 0 15 0.07 1 0 1
.........................................................................................................................................................GATGCTGGGGCTCAGGAATGATTAT......................................................................... 25 0 16 0.06 1 0 1
.................................................................................................................................................GCGAATATGATGCTGGGGCTCAGGAAT............................................................................... 27 0 17 0.06 1 0 1
..............................................................................................................................................................TGGGGCTCAGGAATGATTATATGATCGT................................................................. 28 0 18 0.06 1 1 0
...............................................................................................................................................................GGGGCTCAGGAATGACTATATGATCGT................................................................. 27 1 18 0.06 1 1 0
.......................................................................................................................................................ATGATGCTGGGGCTCAGGAATGAT............................................................................ 24 0 18 0.06 1 1 0
...............................................................................................................................................................GGGGCTCAGGAATTATTATATGATCGT................................................................. 27 1 18 0.06 1 1 0
....................................................................................................................................................AATATGATGCTGGGGCTCAGGAATGA............................................................................. 26 0 18 0.06 1 0 1
..................................................................................................................................................................GCTCAGGAATGATTATATGATCGT................................................................. 24 0 19 0.05 1 1 0
................................................................................................................................................................TGGCTCAGGAATGATTATATGATCGT................................................................. 26 1 19 0.05 1 1 0
........................................................................................................................................................................GAATGATTATATGATCGTTACCCGC.......................................................... 25 0 19 0.05 1 1 0
...............................................................................................................................................................GGGGCTCAGGAATGATTATATTATCGT................................................................. 27 1 19 0.05 1 1 0
.....................................................................................................................................................ATATGATGCTGGGGCTCAGGAAT............................................................................... 23 0 20 0.05 1 0 1
...........................................................................................................................................................TGCTGGGGCTCAGGAATGATTATAT....................................................................... 25 0 20 0.05 1 0 1
.................................................................................................................................................................GGCTCAGGAATGATTATATGATCG.................................................................. 24 0 20 0.05 1 1 0
..........................................................................................................................................................ATGCTGGGGCTCATGAATGATTATAT....................................................................... 26 1 20 0.05 1 0 1
.............................................................................................ATAGCCAAATGGCATCGGTAGAAA...................................................................................................................................... 24 0 20 0.05 1 1 0
...........................................................................................AGATAGCCAAATGGCGTCGGTAGAAAT..................................................................................................................................... 27 1 20 0.05 1 0 1
..........................................................................................................................................................ATGCTGGGGCTCAGGAATGAT............................................................................ 21 0 20 0.05 1 0 1
............................................................................................................................................................................................................................GGAAACACTGCTTAAGCCTAATCTG...... 25 0 20 0.05 1 1 0
..........................................................................................................................................................ATGCTGGGGCTCAGGAATGATTAT......................................................................... 24 0 20 0.05 1 0 1
............................................................................................................................................................GCTGGGGCTCAGGAATGATTATAT....................................................................... 24 0 20 0.05 1 0 1
..............................................................................................................................................................TGGGGCTCAGGAATGATTATATGAT.................................................................... 25 0 20 0.05 1 0 1
...............................................................................................................................................................GGGGCTCAGGAATGATTATATGAT.................................................................... 24 0 20 0.05 1 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droWil2 scf2_1100000002710:8632-8882 - dwi_273 TTTATATTTTCTGACCCCTCCTTTGCAGAATTTATTAAAAATGAAATAAAATATATATAGGCATTGGTCAAATTGCACATCAATATCATAGTCTATCGGTTTACCGTAGCCATCTTTACACAGTATCGCGTAGCCTACTGCTTATCGCTTATACTACGACCCCGAGTCCTTACTAATATACTAGCAATGGGCGTTCATTAGATAAACCATCGTCGCAAAGCCTTTGTGACGAATTCGGATTAGACACCGGT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droWil2
TTTATATTTTCTGACCCCTCCTTTGCAGAATTTATTAAAAATGAAATAAAATATATATAGGCATTGGTCAAATTGCACATCAATATCATAGTCTATCGGTTTACCGTAGCCATCTTTACACAGTATCGCGTAGCCTACTGCTTATCGCTTATACTACGACCCCGAGTCCTTACTAATATACTAGCAATGGGCGTTCATTAGATAAACCATCGTCGCAAAGCCTTTGTGACGAATTCGGATTAGACACCGGTSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
................................................................................................................................................................................................................................TGTGACGAATTCGGATTAGACACCGG.26200.10200020
..................................................................................................................................................................CGAGTCCTTACTAATATACTAGC..................................................................23200.05101000
....................................................................................ATCATAGTCTATCGGTTTACCGTAG..............................................................................................................................................25200.05101000
...............................................................................................................................................................................................................................TTGTGACGAATTCGGATTAGACACCGG.27200.05100010

Generated: 05/17/2015 at 10:33 PM