ID:

dmo_388

 Coordinate:

scaffold_5889:5851-6001 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-17.2 -16.6 -16.6

Flybase annnotation

CDS [Dmoj\GI21392-cds]; exon [dmoj_GLEANR_6322:2]; intron [Dmoj\GI21392-in]

No Repeatable elements found

mature
  1. scaffold_1709:3440-3466 +
  2. scaffold_1990:3469-3495 -
  3. scaffold_2816:118-144 -
  4. scaffold_4392:377-403 +
  5. dmo_388  scaffold_5889:5891-5917 +
  6. scaffold_6378:35852-35878 +
  7. scaffold_6473:16266091-16266117 -
  8. scaffold_6498:2184878-2184904 +
star
  1. scaffold_1709:3482-3505 +
  2. scaffold_1990:3430-3453 -
  3. scaffold_2816:79-102 -
  4. scaffold_4392:419-442 +
  5. scaffold_4485:37138-37161 +
  6. scaffold_4485:46661-46684 +
  7. dmo_388  scaffold_5889:5934-5957 +
  8. scaffold_6378:35894-35917 +
  9. scaffold_6473:16266052-16266075 -
  10. scaffold_6477:4020-4043 -
  11. scaffold_6477:13596-13619 -
  12. scaffold_6498:2184920-2184943 +

Sense Strand Reads

---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------##################################################
CTAGAAATTGGTTAACAAAAGACACTCGACAACTTGATAACGTAAAACTGAGAACGAAGGCGAATACTGTCCCGCTCTAGCGTATAACGCTCAGAAGCGGGGTAACTATGCCACACCAGCCCCCCCATTGGGCAGCGGTACGGTACCTGGAAGCCAGGTACTTCAGTCTGATCCCACTGTCTTCCACCTCTAATCCGACAGGAAATCTTCCCCATGAGGCTACACGCCACCACCTCGATCTCGTCCATCGC
******************************************************************************************..........(((..(((((((..(((.((..(((....)))..)))))..))))..)))..)))..********************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M060
embryo
 M046
female body
 V110
male body		 V056
head
 V041
embryo
..........................................................................................TCAGAAGCGGGGTAACTATGCCACACC...................................................................................................................................... 27 0 8 0.88 7 3 4 0 0 0
......................................................................................................TAACTATGCCACACCAGCCCCC............................................................................................................................... 22 0 8 0.75 6 2 4 0 0 0
......................................................................................................TAACTATGCCACACCAGCCC................................................................................................................................. 20 0 8 0.50 4 3 1 0 0 0
......................................................................................................TAACTATGCCACACCAGCCCCCC.............................................................................................................................. 23 0 8 0.50 4 3 1 0 0 0
......................................................................................................TAACTATGCCACACCAGCCCC................................................................................................................................ 21 0 8 0.38 3 1 2 0 0 0
................................................................................CGTATAACGCTCAGAAGCGGGGTA................................................................................................................................................... 24 0 11 0.36 4 2 2 0 0 0
...............................................................................................................................................................................................................GGCCCCATCAGGCTACACGC........................ 20 3 3 0.33 1 0 1 0 0 0
..................................TGATAACGTAAAGCTGAGAACGAAG................................................................................................................................................................................................ 25 1 5 0.20 1 0 0 0 1 0
..................................TGATAACGTAAAACTGAGAACGAAG................................................................................................................................................................................................ 25 0 5 0.20 1 0 0 1 0 0
...................................GATAACGTAAAACTGAGAACGAAG................................................................................................................................................................................................ 24 0 5 0.20 1 0 0 1 0 0
.............................................................................TAGCGTATAACGCTCAGAAGCGGGGT.................................................................................................................................................... 26 0 13 0.15 2 0 1 1 0 0
................................................................................CGTATAACGCTCAGAAGCGGGGT.................................................................................................................................................... 23 0 13 0.15 2 1 1 0 0 0
......................................................................................................TAACTATGCCAGACCAGCCCCCC.............................................................................................................................. 23 1 8 0.13 1 0 1 0 0 0
..........................................................................................TGAGAAGCGGGGTAACTATGCCACACC...................................................................................................................................... 27 1 8 0.13 1 1 0 0 0 0
..........................................................................................TCAGAAGCGGGGCAACTATGCCACACC...................................................................................................................................... 27 1 8 0.13 1 1 0 0 0 0
............................ACAACATGATAACGTAAATCTGACA...................................................................................................................................................................................................... 25 3 8 0.13 1 1 0 0 0 0
...........................................................................................CAGAAGCGGGGTAACTATGCCACACC...................................................................................................................................... 26 0 8 0.13 1 1 0 0 0 0
.........................................................................................CTCAGAAGCGGGGTAACTATGCCACACC...................................................................................................................................... 28 0 8 0.13 1 1 0 0 0 0
...............................................................................................AGCGGGGTAACTATGCCACACCA..................................................................................................................................... 23 0 8 0.13 1 0 1 0 0 0
.......................................................................................................AACTATGCCACACCAGCCCCCC.............................................................................................................................. 22 0 8 0.13 1 0 1 0 0 0
......................................................................................................TGACTATGCCACACCAGCCCCCC.............................................................................................................................. 23 1 8 0.13 1 1 0 0 0 0
.....................................................................................AACGCTCAGAAGCGGGGTAACTATGCC........................................................................................................................................... 27 0 8 0.13 1 0 0 1 0 0
................................................................................................GCGGGGTAACTATGCCACACCAGC................................................................................................................................... 24 0 8 0.13 1 1 0 0 0 0
....................................................................................................GGTAACTATGCCACTCAAGC................................................................................................................................... 20 2 8 0.13 1 0 1 0 0 0
............................................................................................................................................................................CGCACTGTCTTCCACCTATAATCCGAC.................................................... 27 2 8 0.13 1 1 0 0 0 0
.........................................................................................CTCCGAAGCGGGGTAACTATGCCACA........................................................................................................................................ 26 1 8 0.13 1 0 1 0 0 0
.....................................................................................................CTAACTATGCCACACCAGCCCC................................................................................................................................ 22 1 8 0.13 1 1 0 0 0 0
......................................................................................................TAACTATGCCACACCACCCCCC............................................................................................................................... 22 1 8 0.13 1 1 0 0 0 0
.....................................................................................................GTAACTATGCCACACCAGCCC................................................................................................................................. 21 0 8 0.13 1 1 0 0 0 0
............................................................................................................................................................................CCCACTGTCTTCCACCTATAATCCGAC.................................................... 27 1 8 0.13 1 1 0 0 0 0
.................................................................................CTATAACGCTCAGAAGCGGGGTAACT................................................................................................................................................ 26 1 11 0.09 1 1 0 0 0 0
.....................................................................TCCCGCTCTAGCGTATAACGCTCAGA............................................................................................................................................................ 26 0 12 0.08 1 0 1 0 0 0
..................................................................................................................ACAACCCCCCCCATGGGGC...................................................................................................................... 19 3 12 0.08 1 0 0 0 0 1
.....................................................................................................................................AGCGGTACGGTACCTGGAAGCCAG.............................................................................................. 24 0 12 0.08 1 0 1 0 0 0
.........................................................................GTTCTAGCGTATAACGGTTAGA............................................................................................................................................................ 22 3 13 0.08 1 0 1 0 0 0
.................GAAGACACTCGACAAGTTGGT..................................................................................................................................................................................................................... 21 3 14 0.07 1 0 0 0 0 1
...........................................................................................................................................................AGGTTCTACAGTCCGATCC............................................................................. 19 3 18 0.06 1 1 0 0 0 0

Anti-sense strand reads

GATCTTTAACCAATTGTTTTCTGTGAGCTGTTGAACTATTGCATTTTGACTCTTGCTTCCGCTTATGACAGGGCGAGATCGCATATTGCGAGTCTTCGCCCCATTGATACGGTGTGGTCGGGGGGGTAACCCGTCGCCATGCCATGGACCTTCGGTCCATGAAGTCAGACTAGGGTGACAGAAGGTGGAGATTAGGCTGTCCTTTAGAAGGGGTACTCCGATGTGCGGTGGTGGAGCTAGAGCAGGTAGCG
**********************************************************************************************..........(((..(((((((..(((.((..(((....)))..)))))..))))..)))..)))..****************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M046
female body
 M060
embryo
 V110
male body
........................GAGCTGTTGAACTATTGCAT............................................................................................................................................................................................................... 20 0 10 0.20 2 2 0 0
.........................................................TCGGCTTATTACTGGGCGA............................................................................................................................................................................... 19 3 7 0.14 1 1 0 0
........................................................................................CGAGTCTTCGCCCCATTGATACGG........................................................................................................................................... 24 0 8 0.13 1 0 1 0
...........................................................................................................................................................................AGGGTGACAGAAGGTAGG.............................................................. 18 2 9 0.11 1 0 0 1
.............................................................................................................CGGGGTGGCCGGGGGGGT............................................................................................................................ 18 2 11 0.09 1 1 0 0
..................................................................................ATATTGCGAGTCTTCGCCCCATTGAT............................................................................................................................................... 26 0 11 0.09 1 1 0 0
................................................................................................................................................................................................................................GCGGTGGTGGAGCTAGAGCA....... 20 0 12 0.08 1 0 0 1
....................................................................CAGGGCGAGATCGCATATTGCG................................................................................................................................................................. 22 0 12 0.08 1 1 0 0
...................................................................CCAGGGCGAGATCGCATATTGCG................................................................................................................................................................. 23 1 12 0.08 1 0 1 0
..................................................................................................................................CCGTCGCCATGCCATGGACCT.................................................................................................... 21 0 12 0.08 1 1 0 0
......................................................................GGGCGAGATCGCATATTGCG................................................................................................................................................................. 20 0 12 0.08 1 1 0 0
....................................................................CAGGGCGAGATCGCATATTGCGA................................................................................................................................................................ 23 0 12 0.08 1 0 1 0
.....................................................................AGGGCGAGATCGCATATTGCG................................................................................................................................................................. 21 0 12 0.08 1 1 0 0
.........................................................................CGAGATCGCATATTGCGAGTCTTCGCC....................................................................................................................................................... 27 0 13 0.08 1 1 0 0
.................................................................................................................................CCCGTCGCCATGCCATGGACC..................................................................................................... 21 0 14 0.07 1 0 1 0
...............................................................................................................................................................................TGACAGAAGGTGGTGCTAA......................................................... 19 3 18 0.06 1 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droMoj3 scaffold_5889:5801-6051 + dmo_388 CTAGAAATTGGTTAACAAAAGACACTCGACAACTTGATAACGTAAAACTGAGAACGAAGGCGAATACTGTCCCGCTCTAGCGTATAACGCTCAGAAGCGGGGTAACTATGCCACACCAGCCCCCCCATTGGGCAGCGGTACGGTACCTGGAAGCCAGGTACTTCAGTCTGATCCCACTGTCTTCCACCTCTAATCCGACAGGAAATCTTCCCCATGAGGCTACACGCCACCACCTCGATCTCGTCCATCGC
droPer2 scaffold_137:62401-62460 - T------------------------------------------------------------------------------------------------------------------------------------------AGGGAACCTGGAGGCCCGGGGCTTCATCTTCTCTGCCCTTCCTCCCGCCTCTTACCCGA-----------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droMoj3
CTAGAAATTGGTTAACAAAAGACACTCGACAACTTGATAACGTAAAACTGAGAACGAAGGCGAATACTGTCCCGCTCTAGCGTATAACGCTCAGAAGCGGGGTAACTATGCCACACCAGCCCCCCCATTGGGCAGCGGTACGGTACCTGGAAGCCAGGTACTTCAGTCTGATCCCACTGTCTTCCACCTCTAATCCGACAGGAAATCTTCCCCATGAGGCTACACGCCACCACCTCGATCTCGTCCATCGCSizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
..........................................................................................TCAGAAGCGGGGTAACTATGCCACACC......................................................................................................................................2780.887400030
......................................................................................................TAACTATGCCACACCAGCCCCC...............................................................................................................................2280.756400020
......................................................................................................TAACTATGCCACACCAGCCC.................................................................................................................................2080.504100030
......................................................................................................TAACTATGCCACACCAGCCCCCC..............................................................................................................................2380.504100030
......................................................................................................TAACTATGCCACACCAGCCCC................................................................................................................................2180.383200010
................................................................................CGTATAACGCTCAGAAGCGGGGTA...................................................................................................................................................24110.364200020
..................................TGATAACGTAAAACTGAGAACGAAG................................................................................................................................................................................................2550.201000001
...................................GATAACGTAAAACTGAGAACGAAG................................................................................................................................................................................................2450.201000001
.............................................................................TAGCGTATAACGCTCAGAAGCGGGGT....................................................................................................................................................26130.152100001
................................................................................CGTATAACGCTCAGAAGCGGGGT....................................................................................................................................................23130.152100010
...........................................................................................CAGAAGCGGGGTAACTATGCCACACC......................................................................................................................................2680.131000010
.........................................................................................CTCAGAAGCGGGGTAACTATGCCACACC......................................................................................................................................2880.131000010
...............................................................................................AGCGGGGTAACTATGCCACACCA.....................................................................................................................................2380.131100000
.......................................................................................................AACTATGCCACACCAGCCCCCC..............................................................................................................................2280.131100000
.....................................................................................AACGCTCAGAAGCGGGGTAACTATGCC...........................................................................................................................................2780.131000001
................................................................................................GCGGGGTAACTATGCCACACCAGC...................................................................................................................................2480.131000010
.....................................................................................................GTAACTATGCCACACCAGCCC.................................................................................................................................2180.131000010
.....................................................................TCCCGCTCTAGCGTATAACGCTCAGA............................................................................................................................................................26120.081100000
.....................................................................................................................................AGCGGTACGGTACCTGGAAGCCAG..............................................................................................24120.081100000
droPer2
T------------------------------------------------------------------------------------------------------------------------------------------AGGGAACCTGGAGGCCCGGGGCTTCATCTTCTCTGCCCTTCCTCCCGCCTCTTACCCGA-----------------------------------------------------SizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
..................................................................................................................................................................TCATCTTCTCTGCCCTTCCTCCCGC................................................................25200.65130130000
..................................................................................................................................................................TCATCTTCTCTGCCCTTCCTCCCG.................................................................24200.459090000
..................................................................................................................................................................TCATCTTCTCTGCCCTTCCTCCCGCC...............................................................26200.255050000
..................................................................................................................................................................TCATCTTCTCTGCCCTTCCTT....................................................................21200.153030000
.....................................................................................................................................................................TCTTCTCTGCCCTTCCTCCCGCC...............................................................23200.153210000
.................................................................................................................................................................TTCATCTTCTCTGCCCTTCCTCCCG.................................................................25200.102020000
...................................................................................................................................................................CATCTTCTCTGCCCTTCCTCCCGC................................................................24200.102020000
.....................................................................................................................................................................TCTTCTCTGCCCTTCCTCCCGCCT..............................................................24200.102110000
.................................................................................................................................................................TTCATCTTCTCTGCCCTTCCTCC...................................................................23200.102020000
.......................................................................................................................................................................TTCTCTGCCCTTCCTCCCGCCTCT............................................................24200.051010000
..................................................................................................................................................................TCATCTTCTCTGCCCTTCCTCCCGCCT..............................................................27200.051010000
..............................................................................................................................................................GGCTTCATCTTCTCTGCCCTTCCTCC...................................................................26200.051010000
......................................................................................................................................................................CTTCTCTGCCCTTCCTCCCGC................................................................21200.051010000
.................................................................................................................................................................TTCATCTTCTCTGCCCTTCCTCCCGC................................................................26200.051010000
T------------------------------------------------------------------------------------------------------------------------------------------AGGGAACCTGGAGGCCCGGGGC..........................................................................................23200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGCC...............................................................20200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGCTA..............................................................21200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGC................................................................19200.051010000
...................................................................................................................................................................CATCTTCTCTGCCCTTCCTCCC..................................................................22200.051010000
...................................................................................................................................................................CATCTTCTCTGCCCTTCCTCCCGCCT..............................................................26200.051010000
...............................................................................................................................................................GCTTCATCTTCTCTGCCCTTCCT.....................................................................23200.051010000
.....................................................................................................................................................................TCTTCTCTGCCCTTCCTCCCGCCC..............................................................24200.051100000
.....................................................................................................................................................................TCTTCTCTGCCCTTCCTCCCGCCTC.............................................................25200.051010000
.........................................................................................................................................................................CTCTGCCCTTCCTCCCGCCT..............................................................20200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGCCT..............................................................21200.051100000
...................................................................................................................................................................CATCTTCTCTGCCCTTCCTCCCGCC...............................................................25200.051100000
.......................................................................................................................................................................TTCTCTGCCCTTCCTCCCGC................................................................20200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGCCTCT............................................................23200.051010000
........................................................................................................................................................................TCTCTGCCCTTCCTCCCGCCTC.............................................................22200.051010000

Generated: 05/17/2015 at 10:13 PM