ID:

dwi_3875

 Coordinate:

scf2_1100000004961:2022719-2022869 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-16.6 -16.3 -16.3 -16.2

Flybase annnotation

CDS [Dwil\GK23438-cds]; exon [dwil_GLEANR_6915:2]; intron [Dwil\GK23438-in]

Repeatable elements

NameClassFamilyStrand
AT_richLow_complexityLow_complexity+
mature
  1. scf2_1100000002495:440-466 +
  2. scf2_1100000010591:1456-1482 +
  3. scf2_1100000002916:1497-1523 -
  4. scf2_1100000013355:246-272 -
  5. scf2_1100000002982:1096-1122 -
  6. scf2_1100000003013:2007-2033 -
  7. scf2_1100000001610:685-711 -
  8. scf2_1100000003168:1832-1858 -
  9. scf2_1100000001759:3314-3340 +
  10. scf2_1100000005938:1155-1181 +
  11. scf2_1100000003443:117-143 +
  12. scf2_1100000011239:1285-1311 +
  13. scf2_1100000002035:3249-3275 +
  14. scf2_1100000004839:83843-83869 +
  15. dwi_3875  scf2_1100000004961:2022766-2022792 +
  16. scf2_1100000004961:2184671-2184697 +
  17. scf2_1100000004963:701549-701575 +
  18. scf2_1100000007652:1305-1331 -
  19. scf2_1100000000084:4610-4636 -
  20. scf2_1100000000548:773-799 +
  21. scf2_1100000001391:10382-10408 -
star

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
TTCGACCCCGGGCTAAAAGATAATTTTTTTTTTTATTTTGTAATAATTTAATTTTTTTTCTCACAAAAAAAAAACATTAGCAACTAGTTTAAAAATAATTGACTTCAAGAACAGCATTACGTCGGAAATTCATAAGAGCTATGTAAGTACACAGCTGTTGTATGAAAAGCACAAAATTGTAATTCTTTTTTATATTTGCAGGCCTCTCAAGTAGCTGGAGACAACTCCCGCTTGTGAAGAGCCACAACCTG
**************************************************.........((..................(((...(((.(((((............(((((..(((............(((((((.((((.(((....))).)))).)))..))))...........)))..)))))))))).))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total V118
embryo
 M045
female body
....................................................................................................................................................................................................TGCAGGCCTCTCAAGTAGCTGGAGACA............................ 27 0 1 1.00 1 1 0
...........................................................................................................................................................................................................................GACAACTCCCGCTTGTGAAGAGCCAT...... 26 1 2 0.50 1 0 1
.................................................................................................ATTGACTTCAAGAACAGCATTACGTCG............................................................................................................................... 27 0 20 0.35 7 3 4
.................................................................................................ATTGACTTCAAGAACAGCATTACG.................................................................................................................................. 24 0 20 0.20 4 3 1
...GACCGTGGCCTAAAAGATAA.................................................................................................................................................................................................................................... 20 3 6 0.17 1 1 0
..................................................................................................TTGACTTCAAGAACAGCATTACGTCG............................................................................................................................... 26 0 20 0.10 2 2 0
.................................................................................................ATTGACTTCAAGAACAGCATTACGTCGG.............................................................................................................................. 28 0 20 0.05 1 0 1
..................................................................................................TTGACTTCAAGAACAGCATTACG.................................................................................................................................. 23 0 20 0.05 1 0 1
.................................................................................................ATTGACTTCAAGAACAGCATTACGT................................................................................................................................. 25 0 20 0.05 1 0 1

Anti-sense strand reads

AAGCTGGGGCCCGATTTTCTATTAAAAAAAAAAATAAAACATTATTAAATTAAAAAAAAGAGTGTTTTTTTTTTGTAATCGTTGATCAAATTTTTATTAACTGAAGTTCTTGTCGTAATGCAGCCTTTAAGTATTCTCGATACATTCATGTGTCGACAACATACTTTTCGTGTTTTAACATTAAGAAAAAATATAAACGTCCGGAGAGTTCATCGACCTCTGTTGAGGGCGAACACTTCTCGGTGTTGGAC
**************************************************.........((..................(((...(((.(((((............(((((..(((............(((((((.((((.(((....))).)))).)))..))))...........)))..)))))))))).))))))))************************************************** 		Read size # Mismatch Hit Count Total Norm Total M045
female body
 V118
embryo
 V119
head
 M020
head
..................................................................................TGATCAAATTTTTATTAACTGAAGT................................................................................................................................................ 25 0 1 4.00 4 3 1 0 0
.....................................................................................................................................................................................................................CGACCTCTGTTGAGGGCGAACACTT............. 25 0 1 3.00 3 0 3 0 0
.....................................................................................................................................................................................................................CGACCTCTGTTGAGGGCGAACACT.............. 24 0 1 3.00 3 0 2 1 0
.....................................................................................................................................................................................................................CGACCTCTGTTGAGGGCGAACAC............... 23 0 1 3.00 3 2 1 0 0
.....................................................................................................................................................................................TAAGAAAAAATATAAACGTCCGGAGAGT.......................................... 28 0 1 2.00 2 2 0 0 0
...............................................................................CGTTGATCAAATTTTTATTAACTGAAGT................................................................................................................................................ 28 0 1 2.00 2 2 0 0 0
.............................................................................................................................................ACATTCATGTGTCGACAACATACT...................................................................................... 24 0 2 1.50 3 2 1 0 0
......................................................................................................................................................................................................GTCCGGAGAGTTCATCGACCTCTGT............................ 25 0 1 1.00 1 1 0 0 0
................................................................................GTTGATCAAATTTTTATTAACTGAAGT................................................................................................................................................ 27 0 1 1.00 1 1 0 0 0
.............................................................................................................................................ACATTCATGTGTCGACAACATACTTTT................................................................................... 27 0 2 1.00 2 1 1 0 0
.........................................................................................................................AGCCTTTAAGTATTCTCGATACATTCAT...................................................................................................... 28 0 1 1.00 1 1 0 0 0
...........................................................................................................................................................................GTTTTAACATTAAGAAAAAATATAAACGT................................................... 29 0 1 1.00 1 1 0 0 0
....................................................................................................................AATGCAGCCTTTAAGTATTCTCGAT.............................................................................................................. 25 0 1 1.00 1 1 0 0 0
..................................................................................TGATCAAATTTTTATTAACTGAAGTTCT............................................................................................................................................. 28 0 1 1.00 1 1 0 0 0
......................................................................................................................................................................................................................GACCTCTGTTGAGGGCGAACACT.............. 23 0 1 1.00 1 0 1 0 0
................................................................................GTTGATCAAATTTTTATTAACTGAAGTT............................................................................................................................................... 28 0 1 1.00 1 1 0 0 0
.............................................................................................................................................ACATTCATGTGTCGACAACATACTT..................................................................................... 25 0 2 1.00 2 1 1 0 0
.......................................................................................................................GCAGCCTTTAAGTATTCTCGATACATT......................................................................................................... 27 0 1 1.00 1 1 0 0 0
....................................................................................................................................................................................................ACGTCCGGAGAGTTCATCGACCTCTGTT........................... 28 0 1 1.00 1 1 0 0 0
.....................................................................................................................................................................................................CGTCCGGAGAGTTCATCGACCTCTGT............................ 26 0 1 1.00 1 1 0 0 0
...................................................................................GATCAAATTTTTATTAACTGAAGTT............................................................................................................................................... 25 0 1 1.00 1 1 0 0 0
......................................................................................................................................................................................................GTCCGGAGAGTTCATCGACCTCTGTT........................... 26 0 1 1.00 1 1 0 0 0
....................................................................................................................AATGCAGCCTTTAAGTATTCTCGA............................................................................................................... 24 0 1 1.00 1 1 0 0 0
...........................................................................................................TCTTGTCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 27 0 19 0.53 10 6 3 0 1
.............................................................................................................................TTTAAGTATTCTCGATACATTCATGT.................................................................................................... 26 0 2 0.50 1 1 0 0 0
.............................................................................................................................................ACATTCATGTGTCGACAACATAC....................................................................................... 23 0 2 0.50 1 1 0 0 0
.................................................................................................................................................................................................................TCATCGACCTCTGTTGAGGGCGAAG................. 25 1 2 0.50 1 0 1 0 0
.................................................................................................................................................TCATGTGTCGACAACATACTTTTCGT................................................................................ 26 0 20 0.50 10 8 2 0 0
...........................................................................................................................................ATACATTCATGTGTCGACAACATACTT..................................................................................... 27 0 2 0.50 1 1 0 0 0
............................................................................................................CTTGTCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 26 0 19 0.32 6 4 2 0 0
.................................................................................................................................................TCATGTGTCGACAACATACTTTTCGTGT.............................................................................. 28 0 20 0.20 4 3 1 0 0
.......................................................................................................................................................................TCGGGTTTTAACATTCAGAAAT.............................................................. 22 3 8 0.13 1 1 0 0 0
..........................................................................................................................................................................................................GGAGAGTTCATCGACCTCTGTTGAGG....................... 26 0 8 0.13 1 0 1 0 0
.............................................................................................................TTGTCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 25 0 19 0.11 2 0 2 0 0
..............................................................................................................TGTCGTAATGCAGCCTTTAAGTATT.................................................................................................................... 25 0 19 0.11 2 2 0 0 0
..............................................................................................................TGTCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 24 0 19 0.11 2 1 1 0 0
..............................................................................................................................................CATTCATGTGTCGACAACATACTTTTCGT................................................................................ 29 0 10 0.10 1 1 0 0 0
.................................................................................................................................................TCATGTGTCGACAACATACTTTTCGTG............................................................................... 27 0 20 0.10 2 2 0 0 0
..............................................................................................................................................CATTCATGTGTCGACAACATACTTT.................................................................................... 25 0 10 0.10 1 1 0 0 0
..............................................................................................................................................CATTCATGTGTCGACAACATACTTTT................................................................................... 26 0 10 0.10 1 1 0 0 0
.....................................................................................................TGAAGTTCTTGTCGTAATGCAGCCTT............................................................................................................................ 26 0 20 0.10 2 1 1 0 0
...............................................................................................................................................ATTCATGTGTCGACAACATACTT..................................................................................... 23 0 13 0.08 1 1 0 0 0
............................................................................................................CTTGTCGTAATGCAGCCTTTAAGTATT.................................................................................................................... 27 0 19 0.05 1 1 0 0 0
...........................................................................................................TCTTGCCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 27 1 19 0.05 1 0 1 0 0
.......................................................................................................................................................GTCGACAACATACTTTTCGTGTTTT........................................................................... 25 0 19 0.05 1 1 0 0 0
.............................................................................................................ATGTCGTAATGCAGCCTTTAAGTAT..................................................................................................................... 25 1 19 0.05 1 0 1 0 0
.....................................................................................................................................................GTGTCGACAACATACTTCTCGTGTT............................................................................. 25 1 20 0.05 1 1 0 0 0
...........................................................................................................TCTTGTCGTAATGCAGCCTTTA.......................................................................................................................... 22 0 20 0.05 1 1 0 0 0
...................................................................................................ACTGAAGTTCTTGTCGTAATGCAGCCT............................................................................................................................. 27 0 20 0.05 1 1 0 0 0
..................................................................................................................................................CATGTGTCGACAACATACTTTTCGTGT.............................................................................. 27 0 20 0.05 1 1 0 0 0
....................................................................................................................................................TGTGTCGACAACATACTTTTCGTGTTT............................................................................ 27 0 20 0.05 1 0 1 0 0
......................................................................................................GAAGTTCTTGTCGTAATGCAGCCT............................................................................................................................. 24 0 20 0.05 1 1 0 0 0
.........................................................................................................GTTCTTGTCGTAATGCAGCCTTTAAGT....................................................................................................................... 27 0 20 0.05 1 1 0 0 0
.......................................................................................................AAGTTCTTGTCGTAATGCAGCCTTG........................................................................................................................... 25 1 20 0.05 1 1 0 0 0
....................................................................................................................................................TGTGTCGACAACATACTTTTCGTGT.............................................................................. 25 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................GTGTCGACAACATACTTTTCGTGTT............................................................................. 25 0 20 0.05 1 1 0 0 0
.....................................................................................................................................................GTGTCGACAACATACTTTTCGTGTTT............................................................................ 26 0 20 0.05 1 1 0 0 0
......................................................................................................GAAGTTCTTGTCGTAATGCAGCCTT............................................................................................................................ 25 0 20 0.05 1 1 0 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droWil2 scf2_1100000004961:2022669-2022919 + dwi_3875 TTCGACCCCGGGCTAAAAGATAATTTTTTTTTTTATTTTGTAATAATTTAATTTTTTTTCTCACAAAAAAAAAACATTAGCAACTAGTTTAAAAATAATTGACTTCAAGAACAGCATTACGTCGGAAATTCATAAGAGCTATGTAAGTACACAGCTGTTGTATGAAAAGCACAAAATTGTAATTCTTTTTTAT--ATTTGCAGGCCTCTCAAGTAGCTGGAGACAACTCCCGCTTGTGAAGAGCCACAACCTG
droPer2 scaffold_7589:505-665 + GG----------TTGTAAAAAGTTGTTTTTTTTTATTT-----TAATTTAATTTTTGCTTCCGTTGGCTAAAAATTACCGAAAAAGCGTTAAAAACTTGTGGTTTCAAAAATATTTTTTGTTTCGAAGTATATGACTATGATGTAAAAACAAA--------------------CTAGTATAAACTTTTGTTTGAAA---------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droWil2
TTCGACCCCGGGCTAAAAGATAATTTTTTTTTTTATTTTGTAATAATTTAATTTTTTTTCTCACAAAAAAAAAACATTAGCAACTAGTTTAAAAATAATTGACTTCAAGAACAGCATTACGTCGGAAATTCATAAGAGCTATGTAAGTACACAGCTGTTGTATGAAAAGCACAAAATTGTAATTCTTTTTTAT--ATTTGCAGGCCTCTCAAGTAGCTGGAGACAACTCCCGCTTGTGAAGAGCCACAACCTGSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
......................................................................................................................................................................................................TGCAGGCCTCTCAAGTAGCTGGAGACA............................2711.00100010
.............................................................................................................................................................................................................................GACAACTCCCGCTTGTGAAGAGCCAT......2620.50101000
.................................................................................................ATTGACTTCAAGAACAGCATTACGTCG.................................................................................................................................27200.35704030
.................................................................................................ATTGACTTCAAGAACAGCATTACG....................................................................................................................................24200.20401030
..................................................................................................TTGACTTCAAGAACAGCATTACGTCG.................................................................................................................................26200.10200020
.................................................................................................ATTGACTTCAAGAACAGCATTACGTCGG................................................................................................................................28200.05101000
..................................................................................................TTGACTTCAAGAACAGCATTACG....................................................................................................................................23200.05101000
.................................................................................................ATTGACTTCAAGAACAGCATTACGT...................................................................................................................................25200.05101000
droPer2
GG----------TTGTAAAAAGTTGTTTTTTTTTATTT-----TAATTTAATTTTTGCTTCCGTTGGCTAAAAATTACCGAAAAAGCGTTAAAAACTTGTGGTTTCAAAAATATTTTTTGTTTCGAAGTATATGACTATGATGTAAAAACAAA--------------------CTAGTATAAACTTTTGTTTGAAA---------------------------------------------------------SizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads

Generated: 05/18/2015 at 08:44 AM