ID:

dan_1440

 Coordinate:

scaffold_13150:40800-40950 -

 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.

-37.6 -37.6 -37.5

Flybase annnotation

exon [dana_GLEANR_20368:3]; CDS [Dana\GF18978-cds]; intron [Dana\GF18978-in]

No Repeatable elements found

mature
  1. scaffold_3043:566-587 -
  2. scaffold_3062:265-286 -
  3. scaffold_5248:2474-2495 -
  4. scaffold_8414:5709-5730 -
  5. scaffold_8414:7399-7420 -
  6. scaffold_8415:845-866 -
  7. scaffold_9524:167-188 -
  8. scaffold_10266:647-668 -
  9. scaffold_12103:3107-3128 -
  10. scaffold_12103:3509-3530 -
  11. scaffold_12236:3874-3895 -
  12. scaffold_13088:562557-562578 -
  13. scaffold_13088:568552-568573 -
  14. scaffold_13150:31578-31599 -
  15. scaffold_13150:39001-39022 -
  16. dan_1440  scaffold_13150:40923-40944 -
  17. scaffold_13150:42235-42256 -
  18. scaffold_13150:54796-54817 -
  19. scaffold_13150:55776-55797 -
  20. scaffold_13150:56236-56257 -
star
  1. scaffold_1209:123-142 +
  2. scaffold_1416:224-243 +
  3. scaffold_2195:214-233 +
  4. scaffold_4058:2524-2543 +
  5. scaffold_5382:60-79 -
  6. scaffold_7640:469-488 -
  7. scaffold_8336:878-897 +
  8. scaffold_8336:3706-3725 +
  9. scaffold_8778:3480-3499 -
  10. scaffold_9376:5303-5322 +
  11. scaffold_10303:6846-6865 -
  12. scaffold_10303:7987-8006 -
  13. scaffold_10314:981-1000 +
  14. scaffold_10314:1891-1910 +
  15. dan_1440  scaffold_13150:40820-40839 -
  16. scaffold_13150:59783-59802 -
  17. scaffold_13150:61849-61868 -
  18. scaffold_13266:6635920-6635939 -
  19. scaffold_13266:6638581-6638600 -
  20. scaffold_13266:6653084-6653103 +

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CACCCAGCCAGGTCACCGTCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGTGGCAGGGGCCAACCAGGTCGCCACCTCCAGGTCAGGGGCAGTAGCCAGCCAGGTCACCCTCTCCAGCACCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCACCTCCTCCTGGTCAGGGGCAGGGGAGTGCACCTCCTCCAGTCGCCGGCCATTCCGGCCCGTCTCCCCGCCGAGGGGAAAGTGCCTGAGGG
********************************************************(((..((.....))..)))(((.((((((((..(((((..((.(((.....))).)))))))...((....)).((((.((((......((.....)).)))).))))...)))))..)))))).********************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M058
embryo
 M044
female body
 V055
head
................................................................................................................................................................................................CTCCTCCAGTCGCCGGTCATT...................................... 21 1 3 0.33 1 0 1 0
....................................................................................................................CGACAGCACCACCCAGGTCACCT................................................................................................................ 23 3 4 0.25 1 1 0 0
...........GTCTCCGTCTCCAGCAGCCAGC.......................................................................................................................................................................................................................... 22 1 5 0.20 1 1 0 0
..........................................................................................................................................................................ATTCAGGGGCAGGAGAGTGCA............................................................ 21 3 9 0.11 1 0 0 1
......................................................................................................................................................................................................................................CGAGGGGAAAGTGCCTGAGG. 20 0 20 0.05 1 0 1 0
........................................................GGCAGGGGCCAACCAGGTCGCC............................................................................................................................................................................. 22 0 20 0.05 1 1 0 0
................................................................................CTCCAGGTCGGGCGCAGT......................................................................................................................................................... 18 2 20 0.05 1 0 1 0
..TCCAGCCAGGTGACCGTC....................................................................................................................................................................................................................................... 18 2 20 0.05 1 1 0 0
........................................................GGCAGGGGCCAACCAGGTCGC.............................................................................................................................................................................. 21 0 20 0.05 1 1 0 0
.............................................................................................................................................................................CAAGGGAAGGGGAGTGC............................................................. 17 2 20 0.05 1 0 0 1
.................................................................................................................................................................CCTCCTCCTGGTCAGGGGCA...................................................................... 20 0 20 0.05 1 0 1 0

Anti-sense strand reads

GTGGGTCGGTCCAGTGGCAGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCAATCACCGTCCCCGGTTGGTCCAGCGGTGGAGGTCCAGTCCCCGTCATCGGTCGGTCCAGTGGGAGAGGTCGTGGTCGGTCCAGTGGAGGAGGTCGTCGGTCGGTCCAGTGGAGGAGGACCAGTCCCCGTCCCCTCACGTGGAGGAGGTCAGCGGCCGGTAAGGCCGGGCAGAGGGGCGGCTCCCCTTTCACGGACTCCC
**********************************************************************(((..((.....))..)))(((.((((((((..(((((..((.(((.....))).)))))))...((....)).((((.((((......((.....)).)))).))))...)))))..)))))).******************************************************** 		Read size # Mismatch Hit Count Total Norm Total V106
head
 M058
embryo
 M044
female body
 V055
head
....................................................................................................................................................CGGTCGGTCCAGTGGAGGA.................................................................................... 19 0 20 4.80 96 96 0 0 0
....................................................................................................................................................CGGTCGGTCCAGTGGAGGAG................................................................................... 20 0 20 1.05 21 21 0 0 0
....................................................................................................................................CAGTGGAGGAGGTCGTCGGTC.................................................................................................. 21 0 20 0.70 14 0 0 14 0
...............................................................CGGTTGGTCCAGCGGTGGA......................................................................................................................................................................... 19 0 3 0.33 1 0 1 0 0
.............................................................CCCGGTTGGTCCAGCGGTGTA......................................................................................................................................................................... 21 1 3 0.33 1 0 1 0 0
.......GGTCCAGTGGCAGAGGTCGTC............................................................................................................................................................................................................................... 21 0 5 0.20 1 0 1 0 0
....................................................................................................................................................................................................................................CGGCTCCCCTTTCACGGACTC.. 21 0 20 0.20 4 0 4 0 0
..........................................................................................................................................AGGAGGTCGTCGGTCGGTCCAGTG......................................................................................... 24 0 20 0.20 4 4 0 0 0
.....TCGGTCCAGTGGCAGAGGTC.................................................................................................................................................................................................................................. 20 0 6 0.17 1 0 1 0 0
.........................................................................................................................................GAGGAGGTCGTCGGTCGGTCCAGTGG........................................................................................ 26 0 20 0.15 3 3 0 0 0
...................................................................................................................................................................................................................................GCGGCTCCCCTTTCACGGACT... 21 0 20 0.15 3 0 0 3 0
........................................................CCGTCCCCGGTTGGTCCAGCG.............................................................................................................................................................................. 21 0 20 0.15 3 2 0 1 0
........................................................CCGTCCCCGGTTGGTCCAGC............................................................................................................................................................................... 20 0 20 0.10 2 1 1 0 0
........TTCCAGTGGCAGACGTCG................................................................................................................................................................................................................................. 18 2 15 0.07 1 0 0 1 0
................................................................................................................................................................................................GAGGAGGTCAGCGGCCGGT........................................ 19 0 20 0.05 1 0 0 1 0
.............................................................................................................................................................................................GTGGAGGAGGTCAGCGGCCG.......................................... 20 0 20 0.05 1 0 0 1 0
..................................................................................................................................................................................................GGAGGTCAGCGACCGGTAAGG.................................... 21 1 20 0.05 1 0 1 0 0
...................................................................................................CGGTCGGTCCAGTGGGCGA..................................................................................................................................... 19 1 20 0.05 1 0 1 0 0
...........................................................................................................CCAGTGGGAGAGGTCGTCG............................................................................................................................. 19 1 20 0.05 1 1 0 0 0
..................................................................................................................................................................................................................................TGCGGCTCCCCTTTCACGGAC.... 21 1 20 0.05 1 0 1 0 0
.....................................................................................................................................................................................................................................GGCTCCCCTTTCCCGGACTCC. 21 1 20 0.05 1 0 0 1 0
..............................................................................................................................................................................................................................GAGGGGCGGCTCCCCTTTCACGGACTC.. 27 0 20 0.05 1 1 0 0 0
.......................................CGGAGGAGGTCCAATCACC................................................................................................................................................................................................. 19 0 20 0.05 1 0 1 0 0
.......................TCGTCGGTCGGTCCAGCGGAGGA............................................................................................................................................................................................................. 23 0 20 0.05 1 0 0 1 0
...........................................................................................................................TGGTCGGTCCAGTGGAGGA............................................................................................................. 19 0 20 0.05 1 0 0 1 0
............................................................................TTTGGAGGTCCAGTCCCCGTC.......................................................................................................................................................... 21 2 20 0.05 1 0 0 1 0
........................................................CAGTCCCCGGTTGGTCCACCG.............................................................................................................................................................................. 21 2 20 0.05 1 0 1 0 0
..............................................................................................................................................GGTCGTCGGTCGGTCCAGTGGA....................................................................................... 22 0 20 0.05 1 0 0 1 0
........................................................................................................................................................CGGTCCAGTGGAGGAGGAC................................................................................ 19 0 20 0.05 1 0 1 0 0
........................................................CCGTCCCCGGTTGGTCCATCG.............................................................................................................................................................................. 21 1 20 0.05 1 1 0 0 0
.....................................................................................................................................................................................................................................GGCTCCCCTTTCACGGACTCC. 21 0 20 0.05 1 0 0 1 0
..........................................................GTTCCCGGTTGGTCCTGCG.............................................................................................................................................................................. 19 2 20 0.05 1 0 1 0 0
.................................................................................................................................................CGTCGGTCGGTCAAGTGGAGG..................................................................................... 21 1 20 0.05 1 0 0 1 0
........................................................................................................GGTCCAGTGGGAGAGGTCGTC.............................................................................................................................. 21 1 20 0.05 1 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_13150:40750-41000 - dan_1440 CACCCAGCCAGGTCACCGTCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGTGGCAGGGGCCAACCAGGTCGCCACCTCCAGGTCAGGGGCAGTAGCCAGCCAGGTCACCCTCTCCAGCACCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCACCTCCTCCTGGTCAGGGGCAGGGGAGTGCACCTCCTCCAGTCGCCGGCCATTCCGGCCCGTCTCCCCGCCGAGGGGAAAGTGCCTGAGGG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CACCCAGCCAGGTCACCGTCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGTGGCAGGGGCCAACCAGGTCGCCACCTCCAGGTCAGGGGCAGTAGCCAGCCAGGTCACCCTCTCCAGCACCAGCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCACCTCCTCCTGGTCAGGGGCAGGGGAGTGCACCTCCTCCAGTCGCCGGCCATTCCGGCCCGTCTCCCCGCCGAGGGGAAAGTGCCTGAGGGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
......................................................................................................................................................................................................................................CGAGGGGAAAGTGCCTGAGG.20200.051100000
........................................................GGCAGGGGCCAACCAGGTCGCC.............................................................................................................................................................................22200.051010000
........................................................GGCAGGGGCCAACCAGGTCGC..............................................................................................................................................................................21200.051010000
.................................................................................................................................................................CCTCCTCCTGGTCAGGGGCA......................................................................20200.051100000

Generated: 05/18/2015 at 01:52 AM