ID:

dmo_2201

 Coordinate:

scaffold_6541:561205-561355 -

 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.

-16.9 -16.7 -16.6

Flybase annnotation

exon [dmoj_GLEANR_14407:3]; CDS [Dmoj\GI14184-cds]; intron [Dmoj\GI14184-in]

Repeatable elements

NameClassFamilyStrand
Gypsy4-LTR_DmojLTRGypsy-
Gypsy4-LTR_DmojLTRGypsy-
Gypsy4-I_Dmoj-intLTRGypsy-
mature
star
  1. scaffold_6496:26647030-26647050 -
  2. dmo_2201  scaffold_6541:561254-561274 -

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GGTCAACGTGATGGTCGCACCCTGGGGAAGCGTGACCAGCGCTCTGTTAAGTAAGGGGGGTGTAAGGAGGCTCATCGAGCCGCCTCACATAAATCATATTTAAAGGCCCGCGCAAATCACGGCGATCGGCAATGCAACCATGGCTTTCGCGGCGAAAGTTCAAAGGGCCGAGGTGAGTTGCATTGCATTTAGAAATTAATAAAGTGAAGGAATAAAGAAATTATATGAAGAGCGAACCTCTGTGTGTTTTT
***********************************************************************************************************************************((((((((((((((((...(((....)))...))))))...))).)))))))..........********************************************************** 		Read size # Mismatch Hit Count Total Norm Total M046
female body
 V041
embryo
 M060
embryo
 V110
male body
.GTCAACGTGATGGTCGCACCCTGG.................................................................................................................................................................................................................................. 24 0 1 2.00 2 2 0 0 0
..TCAACGTGATGGTCGCACCCTGGGGAA.............................................................................................................................................................................................................................. 27 0 1 1.00 1 1 0 0 0
......CGTGATGGTCGCACCCTGGGGA............................................................................................................................................................................................................................... 22 0 1 1.00 1 0 1 0 0
.GTCAACGTGATGGTCGCACCCTG................................................................................................................................................................................................................................... 23 0 1 1.00 1 1 0 0 0
........................................................................................................................................................................CGAGGTGAGTTGCATTGCATTTAGA.......................................................... 25 0 1 1.00 1 1 0 0 0
........TGATGGTCGCACCCTGGGGAA.............................................................................................................................................................................................................................. 21 0 1 1.00 1 0 1 0 0
.........................................................................................................................................................GAAAGTTCAAAGGGCCGAGGTGA........................................................................... 23 0 1 1.00 1 1 0 0 0
.............................................................................................................................................................................TGAGTTGCATTGCATTTAG........................................................... 19 0 1 1.00 1 1 0 0 0
.........GATGGTCGCACCCTGGGGAAGCG........................................................................................................................................................................................................................... 23 0 1 1.00 1 1 0 0 0
.........................................................................................................................................................GAAAGTTCAAAGGGCCGAGGTGAG.......................................................................... 24 0 1 1.00 1 1 0 0 0
....AACGTGATGGTCGCACCCTGG.................................................................................................................................................................................................................................. 21 0 1 1.00 1 0 0 1 0
.............................................................................................................................................................................................................GAAGGAATAAAGAAATTATATGAA...................... 24 0 1 1.00 1 1 0 0 0
.GTCAACGTGATGGTCGCACCCTGGGGA............................................................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0 0
...................................................................................................................................ATGCAACCATGGCTTTCGCGG................................................................................................... 21 0 2 0.50 1 1 0 0 0
....................................................................................................................................TGCAACCATGGCTTTCGCGGC.................................................................................................. 21 0 2 0.50 1 0 0 1 0
.........................................................................................................................................CCATGGCTTTCCCGGCGAAAGT............................................................................................ 22 1 2 0.50 1 1 0 0 0
..............................................................................................................................CGGCAATGCAACCATGGCTTTCGCGG................................................................................................... 26 0 2 0.50 1 1 0 0 0
......................................................................................................................................CAACCATGGCTTTCGCGGC.................................................................................................. 19 0 2 0.50 1 1 0 0 0
.....................................................................................................................................GCAACCATGGCTTTCGCGGCGA................................................................................................ 22 0 2 0.50 1 1 0 0 0
.....................................................................................................................................GCAACCATGGCTTTCGCGGC.................................................................................................. 20 0 2 0.50 1 1 0 0 0
.....................................................................................................................................GCAACCATGGCTTTCGCGGCG................................................................................................. 21 0 2 0.50 1 1 0 0 0
...................................................................................................................................................CGCGGCGAAAGTTCAAAGGGCC.................................................................................. 22 0 3 0.33 1 1 0 0 0
........................................................................................................................................................CGAAAGTTCAAAGGGCCGC................................................................................ 19 1 3 0.33 1 1 0 0 0
.....................................................AGGGTGGTGTAACGATGCT................................................................................................................................................................................... 19 3 10 0.10 1 0 1 0 0
.............................................GTTAAGTAAGCGGGGACT............................................................................................................................................................................................ 18 3 20 0.05 1 0 0 0 1

Anti-sense strand reads

CCAGTTGCACTACCAGCGTGGGACCCCTTCGCACTGGTCGCGAGACAATTCATTCCCCCCACATTCCTCCGAGTAGCTCGGCGGAGTGTATTTAGTATAAATTTCCGGGCGCGTTTAGTGCCGCTAGCCGTTACGTTGGTACCGAAAGCGCCGCTTTCAAGTTTCCCGGCTCCACTCAACGTAACGTAAATCTTTAATTATTTCACTTCCTTATTTCTTTAATATACTTCTCGCTTGGAGACACACAAAAA
**********************************************************((((((((((((((((...(((....)))...))))))...))).)))))))..........*********************************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M046
female body
 M060
embryo
 V041
embryo
 V049
head
 V110
male body
.........................................................................................................................................GGTACCGAAAGCGCCGCTTTCAAGTT........................................................................................ 26 0 2 12.50 25 23 2 0 0 0
........................................................................................................................................TGGTACCGAAAGCGCCGCTTTCAAGT......................................................................................... 26 0 2 4.50 9 7 2 0 0 0
....................................................................................................................................................................CCCGGCTCCACTCAACGTAACGT................................................................ 23 0 1 4.00 4 2 2 0 0 0
.........................................................................................................................................GGTACCGAAAGCGCCGCTTTCAAGT......................................................................................... 25 0 2 2.50 5 5 0 0 0 0
........................................................................................................................................TGGTACCGAAAGCGCCGCTTTCAAGTT........................................................................................ 27 0 2 2.50 5 5 0 0 0 0
................................................................................GCGGAGTGTATTTAGTATAAATT.................................................................................................................................................... 23 0 1 2.00 2 1 0 0 1 0
................................................................................................................................................................................CAACGTAACGTAAATCTTTAATTATTT................................................ 27 0 1 2.00 2 2 0 0 0 0
.......................................................................................................................................TTGGTACCGAAAGCGCCGCTTTCAAGT......................................................................................... 27 0 2 1.50 3 3 0 0 0 0
....................................................................................................................AGTGCCGCTAGCCGTTACGTTGGTACC............................................................................................................ 27 0 1 1.00 1 1 0 0 0 0
.............................................................................................................................................................................................ATCTTTAATTATTTCACTTCCTTAT..................................... 25 0 1 1.00 1 1 0 0 0 0
............................TCGCACTGGTCGCGAGACAATTCATT..................................................................................................................................................................................................... 26 0 1 1.00 1 1 0 0 0 0
.............................................................................................................................................................CAAGTTTCCCGGCTCCACTCAACGT..................................................................... 25 0 1 1.00 1 0 1 0 0 0
..............................................................................CGGCGGAGTGTATTTAGTATAAAT..................................................................................................................................................... 24 0 1 1.00 1 1 0 0 0 0
.....................................................................................................................................................................CCGGCTCCACTCAACGTAACGT................................................................ 22 0 1 1.00 1 0 1 0 0 0
......................................................................................................................................................................................................TATTTCACTTCCTTATTTCTTTAAT............................ 25 0 1 1.00 1 1 0 0 0 0
............................................................................................................................................................................................AATCTTTAATTATTTCACTTCCTTAT..................................... 26 0 1 1.00 1 1 0 0 0 0
.......................................................................................................TCCGGGCGCGTTTAGTGCCGCTATCCGT........................................................................................................................ 28 1 1 1.00 1 1 0 0 0 0
....................................................................................................................................................................CCCGGCTCCACTCAACGTAACGTA............................................................... 24 0 1 1.00 1 1 0 0 0 0
..............................................................................................................................................................................................TCTTTAATTATTTCACTTCCTTATT.................................... 25 0 1 1.00 1 1 0 0 0 0
............................................................................................................................................................................................................................AATATACTTCTCGCTTGGAGACACA...... 25 0 1 1.00 1 1 0 0 0 0
................................................................................................................................................................GTTTCCCGGCTCCACTCAACGT..................................................................... 22 0 1 1.00 1 1 0 0 0 0
...................................................................................................................................................................TCCCGGCTCCACTCAACGTAACG................................................................. 23 0 1 1.00 1 1 0 0 0 0
.............................................................................................................................................................................................ATCTTTAATTATTTCACTTCCTTGTT.................................... 26 1 1 1.00 1 1 0 0 0 0
...........................................................................................................................................................................CCACTCAACGTAACGTAAATCTTTAATT.................................................... 28 0 1 1.00 1 0 1 0 0 0
.......................CCCCTTCGCACTGGTCGCGAGACAA........................................................................................................................................................................................................... 25 0 1 1.00 1 1 0 0 0 0
..................................................................................................................................................................TTCCCGGCTCCACTCAACGT..................................................................... 20 0 1 1.00 1 1 0 0 0 0
.......................................................................................................................................................................GGCTCCACTCAACGTAACGT................................................................ 20 0 1 1.00 1 1 0 0 0 0
..................................................................................................................................................................TTCCCGGCTCCACTCAACGTAACGT................................................................ 25 0 1 1.00 1 1 0 0 0 0
......................................CGCGAGACAATTCATTCCCCCCACATT.......................................................................................................................................................................................... 27 0 1 1.00 1 1 0 0 0 0
...........................................................................................................................................................TTCAAGTTTCCCGGCTCCACTCAACGT..................................................................... 27 0 1 1.00 1 1 0 0 0 0
.........................................................................................................CGGGCGCGTTTAGTGCCGCTAGCCGTT....................................................................................................................... 27 0 1 1.00 1 0 0 1 0 0
....................................................................................................................................................................CCCGGCTCCACTCAACGTAAC.................................................................. 21 0 1 1.00 1 0 1 0 0 0
......................................................................................................................TGCCGCTAGCCGTTACGTTGGTACC............................................................................................................ 25 0 1 1.00 1 1 0 0 0 0
......................................................................................................................................................CCGCTTTCAAGTTTCCCGGCTCCACTC.......................................................................... 27 0 1 1.00 1 0 1 0 0 0
...................................................................................................................................................................TCCCGGCTCCACTCAACGTAACGT................................................................ 24 0 1 1.00 1 0 0 1 0 0
..............................................................................CGGCGGAGTGTATTTAGTATAAATT.................................................................................................................................................... 25 0 1 1.00 1 1 0 0 0 0
..................................................................................................................CTAGTGCCGCTAGCCGTTACGTTGGT............................................................................................................... 26 1 1 1.00 1 0 1 0 0 0
...............................................................................................................................................................AGTTTCCCGGCTCCACTCAACGTAACGT................................................................ 28 0 1 1.00 1 1 0 0 0 0
................................................................................................................................................................GTTTCCCGGCTCCACTCAACGTAACGT................................................................ 27 0 1 1.00 1 1 0 0 0 0
...............................................................................................................................................................................................CTTTAATTATTTCACTTCCTTATTT................................... 25 0 1 1.00 1 1 0 0 0 0
............................................................................................................................................................TCAAGTTTCCCGGCTCCACTCAACGT..................................................................... 26 0 1 1.00 1 1 0 0 0 0
.................................................................................CGGAGTGTATTTAGTATAAATT.................................................................................................................................................... 22 0 1 1.00 1 1 0 0 0 0
......................................................................................................................................................CCGCTTTCAAGTTTCCCGGCTCCACT........................................................................... 26 0 1 1.00 1 0 1 0 0 0
...........................................................................................................................................................................................AAATCTTTAATTATTTCACTTCCTTATT.................................... 28 0 1 1.00 1 1 0 0 0 0
........................................................................................................................................CGGTACCGAAAGCGCCGCTTTCAAGTT........................................................................................ 27 1 2 1.00 2 0 2 0 0 0
..........................................................................................................GGGCGCGTTTAGTGCCGCTAGCCGTT....................................................................................................................... 26 0 1 1.00 1 1 0 0 0 0
......................................................................................................CTCCGGGCGCGTTTAGTGCCGCT.............................................................................................................................. 23 1 1 1.00 1 1 0 0 0 0
.....................................................................................................................GTGCCGCTAGCCGTTACGTTGGTACC............................................................................................................ 26 0 1 1.00 1 1 0 0 0 0
...............................................................................GGCGGAGTGTATGTAGTATAAATT.................................................................................................................................................... 24 1 1 1.00 1 1 0 0 0 0
.............................................................................TCGGCGGAGTGTATTTAGTATAAAT..................................................................................................................................................... 25 0 1 1.00 1 1 0 0 0 0
.........................................................................................................................................GGTACCGAAAGCGCGGCTTTCAAGTT........................................................................................ 26 1 2 0.50 1 1 0 0 0 0
................................................................................................................................CCTTACGTTGGTACCGAAAGCGCCGCTTT.............................................................................................. 29 1 2 0.50 1 1 0 0 0 0
........................................................................................................................CCGCTAGCCGTTACGTTGGTA.............................................................................................................. 21 0 2 0.50 1 1 0 0 0 0
........................................................................................................................................TGGTACCGAAAGCGCCGCTTCCAAGT......................................................................................... 26 1 2 0.50 1 0 1 0 0 0
..............................................................................CGGCGGAGTGTATTTAGTAT......................................................................................................................................................... 20 0 2 0.50 1 0 1 0 0 0
........................................................................GTAGCTCGGCGGAGTGTATTTAGTAT......................................................................................................................................................... 26 0 2 0.50 1 0 0 0 0 1
.....................................................................................................................................CGTTGGTACCGAAGGCACCAC................................................................................................. 21 3 2 0.50 1 0 0 0 0 1
.........................................................................................................................................GGTACCGAAAGCGCCGCT................................................................................................ 18 0 2 0.50 1 1 0 0 0 0
...................................................................................................................................GACGTTGGTACCGAAGGCAC.................................................................................................... 20 3 2 0.50 1 1 0 0 0 0
.............................................................................TCGGCGGAGTGTATTTAGTAT......................................................................................................................................................... 21 0 2 0.50 1 1 0 0 0 0
................................................................................GCGGAGTGTATTTAGTATAAAGT.................................................................................................................................................... 23 1 2 0.50 1 0 1 0 0 0
.........................................................................................................................................GGTACCGAAAGCGCCGCTTTCAAGGC........................................................................................ 26 2 2 0.50 1 0 1 0 0 0
........................................................................................................................................CGGTACCGAAAGCGCCGCTTTCAAGT......................................................................................... 26 1 2 0.50 1 0 1 0 0 0
........................................................................................................................................CGGTACCGAAAGCGCAGCTTTCAAGT......................................................................................... 26 2 2 0.50 1 0 1 0 0 0
............................................................................CTCGGCGGAGTGTATTTAGTAT......................................................................................................................................................... 22 0 2 0.50 1 0 1 0 0 0
........................................................................................................................................TGGTACCGAAAGCGCCGCT................................................................................................ 19 0 2 0.50 1 1 0 0 0 0
...................................................................................................................................TACGTTGGTACCGAAAGCGCCGCTTT.............................................................................................. 26 0 2 0.50 1 1 0 0 0 0
..............................................................................CGGCGGAGTGTATTTAGTATAAAGT.................................................................................................................................................... 25 1 2 0.50 1 0 1 0 0 0
...........................................................................GCTCGGCGGAGTGTATTTAGTAT......................................................................................................................................................... 23 0 2 0.50 1 1 0 0 0 0
.........................................................................................................................................GGTACCGAAAGCGCCGCTTTCAAGTTC....................................................................................... 27 1 2 0.50 1 1 0 0 0 0
.........................................................................................................................................GGTACCGAAAGCGCCGCTTTCAATT......................................................................................... 25 1 2 0.50 1 0 1 0 0 0
.............................................................................TCGGCGGAGTATATTTAGTATAAATT.................................................................................................................................................... 26 1 2 0.50 1 0 1 0 0 0
...................................................................................................................................TACGTTGGTACCGAAAGCGCCGCT................................................................................................ 24 0 2 0.50 1 1 0 0 0 0
.......................................................................................................................................TTGGTACCGAAAGCGCCGCTTTCAAGTT........................................................................................ 28 0 2 0.50 1 1 0 0 0 0
.................................................................................................................................GTTACGTTGGTACCGAAAGCG..................................................................................................... 21 0 3 0.33 1 1 0 0 0 0
.....................................................................................................................................................GCCGCTTTCAAGTTTCCCGGC................................................................................. 21 0 3 0.33 1 1 0 0 0 0
........................................................................................................................CCGCTAGCCGTTACGTTGGTACCAA.......................................................................................................... 25 1 16 0.25 4 0 4 0 0 0
.......................................................................................................................................................CGCTTCCAATTTGCCCGGC................................................................................. 19 3 13 0.08 1 0 0 0 1 0
..............................................................................................................................GCCGTTTCGCTGGTATCGA.......................................................................................................... 19 3 20 0.05 1 0 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droMoj3 scaffold_6541:561155-561405 - dmo_2201 GGTCAACGTGATGGTCGCACCCTGGGGAAGCGTGACCAGCGCTCTGTTAAGTAAGGGGGGTGTAAGGAGGCTCATCGAGCCGCCTCACATAAATCATATTTAAAGGCCCGCGCAAATCACGGCGATCGGCAATGCAACCATGGCTTTCGCGGCGAAAGTTCAAAGGGCCGAGGTGAGTTGCATTGCATTTAGAAATTAATAAAGTGAAGGAATAAAGAAATTATATGAAGAGCGAACCTCTGTGTGTTTTT

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droMoj3
GGTCAACGTGATGGTCGCACCCTGGGGAAGCGTGACCAGCGCTCTGTTAAGTAAGGGGGGTGTAAGGAGGCTCATCGAGCCGCCTCACATAAATCATATTTAAAGGCCCGCGCAAATCACGGCGATCGGCAATGCAACCATGGCTTTCGCGGCGAAAGTTCAAAGGGCCGAGGTGAGTTGCATTGCATTTAGAAATTAATAAAGTGAAGGAATAAAGAAATTATATGAAGAGCGAACCTCTGTGTGTTTTTSizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
.GTCAACGTGATGGTCGCACCCTGG..................................................................................................................................................................................................................................2412.002200000
..TCAACGTGATGGTCGCACCCTGGGGAA..............................................................................................................................................................................................................................2711.001100000
......CGTGATGGTCGCACCCTGGGGA...............................................................................................................................................................................................................................2211.001010000
.GTCAACGTGATGGTCGCACCCTG...................................................................................................................................................................................................................................2311.001100000
........................................................................................................................................................................CGAGGTGAGTTGCATTGCATTTAGA..........................................................2511.001100000
........TGATGGTCGCACCCTGGGGAA..............................................................................................................................................................................................................................2111.001010000
.........................................................................................................................................................GAAAGTTCAAAGGGCCGAGGTGA...........................................................................2311.001100000
.............................................................................................................................................................................TGAGTTGCATTGCATTTAG...........................................................1911.001100000
.........GATGGTCGCACCCTGGGGAAGCG...........................................................................................................................................................................................................................2311.001100000
.........................................................................................................................................................GAAAGTTCAAAGGGCCGAGGTGAG..........................................................................2411.001100000
....AACGTGATGGTCGCACCCTGG..................................................................................................................................................................................................................................2111.001000010
.............................................................................................................................................................................................................GAAGGAATAAAGAAATTATATGAA......................2411.001100000
.GTCAACGTGATGGTCGCACCCTGGGGA...............................................................................................................................................................................................................................2711.001100000
...................................................................................................................................ATGCAACCATGGCTTTCGCGG...................................................................................................2120.501100000
....................................................................................................................................TGCAACCATGGCTTTCGCGGC..................................................................................................2120.501000010
..............................................................................................................................CGGCAATGCAACCATGGCTTTCGCGG...................................................................................................2620.501100000
......................................................................................................................................CAACCATGGCTTTCGCGGC..................................................................................................1920.501100000
.....................................................................................................................................GCAACCATGGCTTTCGCGGCGA................................................................................................2220.501100000
.....................................................................................................................................GCAACCATGGCTTTCGCGGC..................................................................................................2020.501100000
.....................................................................................................................................GCAACCATGGCTTTCGCGGCG.................................................................................................2120.501100000
...................................................................................................................................................CGCGGCGAAAGTTCAAAGGGCC..................................................................................2230.331100000
........................................................................................................................................................CGAAAGTTCAAAGGGCCGC................................................................................1930.331100000

Generated: 05/18/2015 at 02:08 AM