ID:

dps_118

 Coordinate:

Unknown_group_117:19676-19749 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-40.3

Flybase annnotation

intergenic

Repeatable elements

NameClassFamilyStrand
Gypsy8-I_Dpse-intLTRGypsy+
mature
  1. Unknown_group_391:13357-13374 +
  2. Unknown_singleton_959:124340-124357 +
  3. Unknown_group_102:16359-16376 +
  4. Unknown_group_22:31113-31130 -
  5. dps_118  Unknown_group_117:19730-19747 +
star

Sense Strand Reads

AGCTTCAGGACGCGCAGGGCAACTACGAGCTTCGGGCCAGACCGACGGGTGCCGCTCATGCGTGTACTACCGGGCGAGGAGTCGGATGATTCTTAGGTCCGAGACACTGTGTGAGGGAGACACCCGTGAAATGAGTCCGGCCGAAGGCGCATAAAAGTGTCCTGGGCCGTGGGT
********************************************(((((((((.(((((((((((.((..(((((.(((((((....)))))))..))))))))))).)))))))))...)))))))..........************************************* 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902010
ovaries
 SRR902011
testis
 M022
male body		 V112
male body		 GSM343916
embryo
 M059
embryo
........................................................................................................CACTGTGTGAGGGAGACACCCGT............................................... 23 0 1 6.00 6 6 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACA.................................................... 18 0 5 4.80 24 15 7 0 0 0 2 0
........................................................................................................CACTGTGTGAGGGAGACAA................................................... 19 1 7 3.29 23 21 0 0 0 0 1 1
........................................................................................................CACTGTGTGAGGGAGACAC................................................... 19 0 5 3.20 16 15 0 0 0 0 0 1
........................................................................................................CACTGTGTGAGGGAGACACCCG................................................ 22 0 1 3.00 3 3 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACACC.................................................. 20 0 5 2.60 13 13 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACACCCGTGA............................................. 25 0 1 2.00 2 1 1 0 0 0 0 0
...........................................................GCGTGTACTACCGGGCGAGGA.............................................................................................. 21 0 1 2.00 2 2 0 0 0 0 0 0
.................................................................................TCGGATGGTTCTTCGGTCAGA........................................................................ 21 3 1 2.00 2 2 0 0 0 0 0 0
......................................................................................TGATTCTTAGGTCCGAGAA..................................................................... 19 1 1 1.00 1 1 0 0 0 0 0 0
.................................................................................................................................AATGAGTCCGGCCGAAGGCGC........................ 21 0 1 1.00 1 0 0 1 0 0 0 0
...........................................GACGGGTGCCGCTCATGCGTGT............................................................................................................. 22 0 1 1.00 1 1 0 0 0 0 0 0
...........................................................GCGTGTACTACCGGGCGAGGAG............................................................................................. 22 0 1 1.00 1 1 0 0 0 0 0 0
.......................TACGAGCTTCGGGCCAGACCGACG............................................................................................................................... 24 0 1 1.00 1 0 0 0 0 1 0 0
...................................................................................................CGAGACACTGTGTGAGGGT........................................................ 19 1 1 1.00 1 0 0 1 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACACCCGTG.............................................. 24 0 1 1.00 1 0 0 0 1 0 0 0
...........................................................GCGTGTACTACCGGGCGAGG............................................................................................... 20 0 1 1.00 1 1 0 0 0 0 0 0
...........................................................GCGTGTACTACCGGGCGAGGAGT............................................................................................ 23 0 1 1.00 1 1 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACAAA.................................................. 20 2 9 0.78 7 6 0 0 0 0 1 0
.........................................................................................................ACTGTGTGAGGGAGACAC................................................... 18 0 6 0.33 2 2 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACGCCC................................................. 21 1 14 0.29 4 2 0 2 0 0 0 0
..CTTCAGGACAAGCAGGGCACC....................................................................................................................................................... 21 3 4 0.25 1 1 0 0 0 0 0 0
.........................................................................................................ACTGTGTGAGGGAGACAA................................................... 18 1 8 0.25 2 2 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGAC..................................................... 17 0 18 0.22 4 0 4 0 0 0 0 0
........................................................................................................CACCGTGTGAGGGAGACACC.................................................. 20 1 5 0.20 1 1 0 0 0 0 0 0
.........................................................................................................ACTGTGTGAGGGAGACACC.................................................. 19 0 6 0.17 1 1 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGATA.................................................... 18 1 7 0.14 1 1 0 0 0 0 0 0
..............................................GGATGTCGCTCAAGCGTGT............................................................................................................. 19 3 16 0.13 2 2 0 0 0 0 0 0
........................................................................................................CCCTGTGTGAGGGAGACAA................................................... 19 2 8 0.13 1 1 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGTCAA................................................... 19 2 8 0.13 1 1 0 0 0 0 0 0
......................................................ATCATGCGTGAAATACCGGG.................................................................................................... 20 3 9 0.11 1 1 0 0 0 0 0 0
.....................................................................................................ATACACTGTGTGAGGGAGACGC................................................... 22 2 14 0.07 1 0 1 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACGAAC................................................. 21 3 16 0.06 1 1 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGACT.................................................... 18 1 18 0.06 1 1 0 0 0 0 0 0
........................................................................................................CACTGCGTGAGGGAGAC..................................................... 17 1 18 0.06 1 0 1 0 0 0 0 0
..................................................................CTACCGGGCGAGGAGTCGG......................................................................................... 19 0 19 0.05 1 1 0 0 0 0 0 0
...........................................GACGGGTGCCGCTCATGC................................................................................................................. 18 0 19 0.05 1 1 0 0 0 0 0 0
........................................................................................................CACTGTGTGAGGGAGCCT.................................................... 18 2 20 0.05 1 1 0 0 0 0 0 0
..................................................................................................................................ATGAACCCGGCTGAAGGCG......................... 19 3 20 0.05 1 1 0 0 0 0 0 0

Anti-sense strand reads

TCGAAGTCCTGCGCGTCCCGTTGATGCTCGAAGCCCGGTCTGGCTGCCCACGGCGAGTACGCACATGATGGCCCGCTCCTCAGCCTACTAAGAATCCAGGCTCTGTGACACACTCCCTCTGTGGGCACTTTACTCAGGCCGGCTTCCGCGTATTTTCACAGGACCCGGCACCCA
*************************************(((((((((.(((((((((((.((..(((((.(((((((....)))))))..))))))))))).)))))))))...)))))))..........******************************************** 		Read size # Mismatch Hit Count Total Norm Total M040
female body
 SRR902010
ovaries
 M059
embryo
 GSM343916
embryo
.........................................................................................AAGAATCCAGGCTCTGTGACACACT............................................................ 25 0 1 6.00 6 5 1 0 0
..........................................................ACGCACATGATGGCCCGCTCCTCAGCCT........................................................................................ 28 0 1 2.00 2 2 0 0 0
.CGAAGTCCTGCGCGTCCCGTTGAT..................................................................................................................................................... 24 0 1 2.00 2 2 0 0 0
.....................................................................GGCCCGCTCCTCAGCCTACT..................................................................................... 20 0 19 1.79 34 34 0 0 0
.....................................................CGAGTACGCACATGATGGCCCGCTCCT.............................................................................................. 27 0 1 1.00 1 1 0 0 0
....................................GGTCTGGCTGCCCACGGCGAGT.................................................................................................................... 22 0 1 1.00 1 1 0 0 0
...............................................CCACGGCGAGTACGCACATGGT......................................................................................................... 22 1 1 1.00 1 0 0 1 0
............................................TGCCCACGGCGAGTACGCAGAT............................................................................................................ 22 1 1 1.00 1 0 1 0 0
...............................................................AATGATGGCCCGCTCCTCAGCCTACT..................................................................................... 26 1 1 1.00 1 1 0 0 0
..........................................GCTGCCCACGGCGAGTACGCACATGAT......................................................................................................... 27 0 1 1.00 1 1 0 0 0
.................................................ACGGCGAGTACGCACATGATGGCC..................................................................................................... 24 0 1 1.00 1 1 0 0 0
.............................................GCCCACGGCGAGTACGCACATGAT......................................................................................................... 24 0 1 1.00 1 1 0 0 0
................................................CACGGCGAGTACGCACATGAT......................................................................................................... 21 0 1 1.00 1 1 0 0 0
..................................CCGGTCTGGCTGCCCACGGCGACT.................................................................................................................... 24 1 1 1.00 1 1 0 0 0
.............................................GCCCACGGCGAGTACGCACATGA.......................................................................................................... 23 0 1 1.00 1 1 0 0 0
...............................................................CATGATGGCCCGCTCCTCAGCCTACT..................................................................................... 26 0 1 1.00 1 1 0 0 0
..GAAGTCCTGCGCGTCCCGTTGAT..................................................................................................................................................... 23 0 1 1.00 1 1 0 0 0
..................................................................GATGGCCCGCTCCTCAGCCTACT..................................................................................... 23 0 19 0.68 13 12 1 0 0
...............................................................AAAGATGGCCCGCTCCTCAGCCT........................................................................................ 23 2 15 0.40 6 6 0 0 0
.................................................................TGATGGCCCGCTCCTCAGCCTACT..................................................................................... 24 0 5 0.40 2 2 0 0 0
...................................................................ATGGCCCGCTCCTCAGCCTACT..................................................................................... 22 0 19 0.26 5 5 0 0 0
............................................TGCCCACGGCGAGTACGCACTTGAT......................................................................................................... 25 1 4 0.25 1 0 0 1 0
.....................................................................GGCCCGCTCCTCAGCCTAC...................................................................................... 19 0 19 0.21 4 4 0 0 0
................................................................AAGATGGCCCGCTCCTCAGCCTACT..................................................................................... 25 1 15 0.20 3 0 3 0 0
........................................TGGCTGCCCAGAGCGAATA................................................................................................................... 19 3 6 0.17 1 1 0 0 0
...............................................................AAAGATGGCCCGCTCCTCAGCCTACT..................................................................................... 26 2 15 0.13 2 2 0 0 0
................................................................AAGATGGCCCGCTCCTCAGCCT........................................................................................ 22 1 15 0.13 2 2 0 0 0
..............................................................................................TCCAGGCTCGGTGACACACT............................................................ 20 1 17 0.12 2 2 0 0 0
.............................................................................................AACCAGGCTCGGTGACACACT............................................................ 21 2 18 0.11 2 1 0 0 1
..................................................................GATGGCCCGCTCCTCAGCCTAC...................................................................................... 22 0 19 0.11 2 2 0 0 0
.......................................................................CCCGCTCCTCAGCCTACT..................................................................................... 18 0 19 0.11 2 2 0 0 0
...................................................................ATGGCCCGCTCCTCAGCCTAC...................................................................................... 21 0 19 0.11 2 2 0 0 0
..........................................GCTGCCCACGGCGAGTACGCAC.............................................................................................................. 22 0 19 0.11 2 1 1 0 0
......................................................................GCCCGCTCCTCAGCCTACT..................................................................................... 19 0 19 0.11 2 2 0 0 0
....................................................................TGGCCCGCTCCTCAGCCT........................................................................................ 18 0 19 0.11 2 2 0 0 0
....................................................................TGGCCCGCTCCTCAGCCTACT..................................................................................... 21 0 19 0.11 2 2 0 0 0
............................................................................................AAAACAGGCTCGGTGACACACT............................................................ 22 3 20 0.10 2 2 0 0 0
...............................................................AAAGATGGCCCGCTCCTCAGCCTAC...................................................................................... 25 2 15 0.07 1 1 0 0 0
...............................................................AAAGATGGCCCGCTCCTCAGC.......................................................................................... 21 2 15 0.07 1 1 0 0 0
..................................................GGGCGAGTATGCACAAGATGG....................................................................................................... 21 3 15 0.07 1 0 0 0 1
...............................................CCACGGCGAGTACGCACAAGATG........................................................................................................ 23 1 16 0.06 1 0 0 0 1
..................................................CGGCGAGTACGCACAAGAT......................................................................................................... 19 1 16 0.06 1 1 0 0 0
..........................................................................................AGAACCCAGGCTCGGTGACACACT............................................................ 24 2 17 0.06 1 1 0 0 0
..........................................................................................AGAGTCCAGGCTCGGTGACACACT............................................................ 24 2 17 0.06 1 1 0 0 0
...................................................................ATGGCCCGCTCCTCAGCCTA....................................................................................... 20 0 19 0.05 1 1 0 0 0
.....................................................................GGCCCGCTCCTCAGCC......................................................................................... 16 0 19 0.05 1 0 1 0 0
...................................................................TTGGCCCGCTCCTCAGCCTAC...................................................................................... 21 1 19 0.05 1 1 0 0 0
..................................................................GATGGCCCGCTCCTCAGCC......................................................................................... 19 0 19 0.05 1 1 0 0 0
...........................................CTGCCCACGGCGAGTACGCAC.............................................................................................................. 21 0 19 0.05 1 1 0 0 0
..................................................................AATGGCCCGCTCCTCAGCCTACT..................................................................................... 23 1 19 0.05 1 1 0 0 0
............................................TGCCCACGGCGAGTACGCA............................................................................................................... 19 0 19 0.05 1 1 0 0 0
.....................................................................TGCCCGCTCCTCAGCCTACT..................................................................................... 20 1 19 0.05 1 1 0 0 0
...........................................CTGCCCACGGCGAGTACGCACT............................................................................................................. 22 1 19 0.05 1 0 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
dp5 Unknown_group_117:19626-19799 + dps_118 AGCTTCAGGACGCGCAGGGCAACTACGAGCTTCGGGCCAGACCGACGGGTGCCGCTCATGCGTGTACTACCGGGCGAGGAGTCGGAT---GATT-CTTAGGTCCGAGACACTGTGTGA---GGGAGACACCCGTGAAATGAGTCCGGCCGAAGG---CGCATAAAAGTGTCCTGGGCCGT----GGGT
droPer2 scaffold_54:342155-342328 - AGCCTCAGGACGCGCAGGGCAACTACGAGCTTCGGGCCAGACCGACGGGTGCCGCTCATGCGTGTACTACCGGGCGAGGAGTCGGAT---GATT-CTTAGGTCCGAGACACTGTGTGA---GGGAGACACCCGTGAAATGAGTCCGGCCGAAGG---CGCATAAAAGTGTCCTGGGCCGT----GGGT
droAna3 scaffold_9689:9619-9755 - CGCG---------------------------------------------CGCTGCTC-----GGCACTACAACCTGAGGAGGCGGAAGTGGAGCCCGAAGATCGGCGACATGGTGTGGGCAAAGGAACACCATTTGTCTAAAG-CAGTCGAAGGTTTCGCGCCAAAGTACGACGGGCCGTACCAGTGG

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
dp5
AGCTTCAGGACGCGCAGGGCAACTACGAGCTTCGGGCCAGACCGACGGGTGCCGCTCATGCGTGTACTACCGGGCGAGGAGTCGGAT---GATT-CTTAGGTCCGAGACACTGTGTGA---GGGAGACACCCGTGAAATGAGTCCGGCCGAAGG---CGCATAAAAGTGTCCTGGGCCGT----GGGTSizeHit CountTotal NormTotalM022
Male-body		M040
Female-body		M059
Embryo		M062
Head		V043
Embryo		V051
Head		V112
Male-body		SRR902010
Ovary		SRR902011
Testis		SRR902012
CNS imaginal disc
............................................................................................................CACTGTGTGA---GGGAGACACCCGT......................................................2316.0060600000000
............................................................................................................CACTGTGTGA---GGGAGACA...........................................................1854.802401500200700
............................................................................................................CACTGTGTGA---GGGAGACAA..........................................................1973.292302110100000
............................................................................................................CACTGTGTGA---GGGAGACAC..........................................................1953.201601510000000
............................................................................................................CACTGTGTGA---GGGAGACACCCG.......................................................2213.0030300000000
............................................................................................................CACTGTGTGA---GGGAGACACC.........................................................2052.601301300000000
............................................................................................................CACTGTGTGA---GGGAGACACCCGTGA....................................................2512.0020100000100
...........................................................GCGTGTACTACCGGGCGAGGA............................................................................................................2112.0020200000000
......................................................................................T---GATT-CTTAGGTCCGAGAA...............................................................................1911.0010100000000
........................................................................................................................................AATGAGTCCGGCCGAAGG---CGC............................2111.0010000000010
...........................................GACGGGTGCCGCTCATGCGTGT...........................................................................................................................2211.0010100000000
...........................................................GCGTGTACTACCGGGCGAGGAG...........................................................................................................2211.0010100000000
.......................TACGAGCTTCGGGCCAGACCGACG.............................................................................................................................................2411.0010000001000
.......................................................................................................CGAGACACTGTGTGA---GGGT...............................................................1911.0010000000010
............................................................................................................CACTGTGTGA---GGGAGACACCCGTG.....................................................2411.0011000000000
...........................................................GCGTGTACTACCGGGCGAGG.............................................................................................................2011.0010100000000
...........................................................GCGTGTACTACCGGGCGAGGAGT..........................................................................................................2311.0010100000000
............................................................................................................CACTGTGTGA---GGGAGACAAA.........................................................2090.7870600100000
.............................................................................................................ACTGTGTGA---GGGAGACAC..........................................................1860.3320200000000
.............................................................................................................ACTGTGTGA---GGGAGACAA..........................................................1880.2520200000000
............................................................................................................CACTGTGTGA---GGGAGAC............................................................17180.2240000000400
.............................................................................................................ACTGTGTGA---GGGAGACACC.........................................................1960.1710100000000
............................................................................................................CACTGTGTGA---GGGAGACT...........................................................18180.0610100000000
..................................................................CTACCGGGCGAGGAGTCGG.......................................................................................................19190.0510100000000
...........................................GACGGGTGCCGCTCATGC...............................................................................................................................18190.0510100000000
droPer2
AGCCTCAGGACGCGCAGGGCAACTACGAGCTTCGGGCCAGACCGACGGGTGCCGCTCATGCGTGTACTACCGGGCGAGGAGTCGGAT---GATT-CTTAGGTCCGAGACACTGTGTGA---GGGAGACACCCGTGAAATGAGTCCGGCCGAAGG---CGCATAAAAGTGTCCTGGGCCGT----GGGTSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
............................................................................................................CACTGTGTGA---GGGAGACACCCGTG.....................................................2412.002020000
............................................................................................................CACTGTGTGA---GGGAGACACCCGTGAAA..................................................2711.001010000
...........................................................GCGTGTACTACCGGGCGAGGA............................................................................................................2111.001010000
............................................................................................................CACTGTGTGA---GGGAGACACCCGTGA....................................................2511.001010000
...........................................................GCGTGTACTACCGGGCGAGGAGT..........................................................................................................2311.001010000
...............AGGGCAACTACGAGCTTCGGG........................................................................................................................................................2111.001010000
............................................................................................................CACTGTGTGA---GGGAGACA...........................................................1870.433030000
............................................................................................................CACTGTGTGA---GGGAGACACC.........................................................2070.433030000
.............................................................................................................ACTGTGTGA---GGGAGACACCC........................................................2030.331010000
............................................................................................................CACTGTGTGA---GGGAGACACCCG.......................................................2230.331010000
............................................................................................................CACTGTGTGA---GGGAGACAC..........................................................1970.141010000
............................................................................................................CACTGTGTGA---GGGAGACAA..........................................................1990.111010000
..........................................CGACGGGTGCCGCTCATC................................................................................................................................18200.051010000
droAna3
CGCG---------------------------------------------CGCTGCTC-----GGCACTACAACCTGAGGAGGCGGAAGTGGAGCCCGAAGATCGGCGACATGGTGTGGGCAAAGGAACACCATTTGTCTAAAG-CAGTCGAAGGTTTCGCGCCAAAGTACGACGGGCCGTACCAGTGGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
..............................................................GGCACTACAACCTGAGGAGGCGGA......................................................................................................2450.402110000
..............................................................GGCACTACAACCTGAGGAGGCGG.......................................................................................................23200.357600010
...................................................................TACAACCTGAGGAGGCGGAAGTGG.................................................................................................2450.201010000
..............................................................GGCACTACAACCTGAGGAGGCGGAA.....................................................................................................2550.201100000
...................................................................TACAACCTGAGGAGGCGGAAGT...................................................................................................2250.201010000
.................................................................ACTACAACCTGAGGAGGCGGA......................................................................................................2150.201100000
...................................................................TACAACCTGAGGAGGCGGAAGTGGAGTT.............................................................................................2890.111100000
..............................................................GGCACTACAACCTGAGGAGGCG........................................................................................................22200.102200000
...........................................................................................AGCCCGAAGATCGGCGACATGAAA.........................................................................24120.081100000
........................................................C-----GGCACTACAACCTGAGGAGGCG........................................................................................................23180.061100000
..............................................................GGCACTACAACCTGAGGAGGC.........................................................................................................21200.051001000
.......................................................TC-----GGCACTACAACCTGAGGAGGC.........................................................................................................23200.051010000
.......................................................TC-----GGCACTACAACCTGAGGAGG..........................................................................................................22200.051100000

Generated: 05/15/2015 at 02:36 PM