ID:

dpe_1298

 Coordinate:

scaffold_28:334439-334589 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-5.7

Flybase annnotation

CDS [Dper\GL15184-cds]; exon [dper_GLEANR_16118:1]; intron [Dper\GL15184-in]

Repeatable elements

NameClassFamilyStrand
Gypsy24-I_Dpse-intLTRGypsy+
mature
  1. scaffold_239:28734-28759 -
  2. scaffold_66:365664-365689 -
  3. scaffold_26:8268-8293 -
  4. dpe_1298  scaffold_28:334555-334580 -
  5. scaffold_427:735-760 +
  6. scaffold_108:36658-36683 -
  7. scaffold_310:2028-2053 -
  8. scaffold_392:12024-12049 -
  9. scaffold_5523:1357-1382 +
star

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CTGCATTCTTCTGCCGCGCCCAGAGCTCTGGAGTCCTCCAGAGCACACGCGTTCTCTCCTACTGGCTTCACTACCCGGCATCGGATGAATTGCGCGCGAACTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
**************************************************((((..(((..((((.........))))....))).))))...............................................................................................................************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 M021
embryo
 V057
head
 V042
embryo
...........................................................TACTGGCTTCACTACCCGGCATCGGA...................................................................................................................................................................... 26 0 9 2.67 24 24 0 0 0
......TCTTCTGCCGCGCCCAGAGCTCTGGAG.......................................................................................................................................................................................................................... 27 0 2 2.50 5 0 5 0 0
...........................................................TACTGGCTTCACTACCCGGCATCGG....................................................................................................................................................................... 25 0 9 2.22 20 20 0 0 0
.TGCATTCTTCTGCCGCGCCCAGAGC................................................................................................................................................................................................................................. 25 0 2 1.50 3 3 0 0 0
.........TCTGCCGCGCCCAGAGCTCTGGAG.......................................................................................................................................................................................................................... 24 0 2 1.00 2 1 1 0 0
........................................................TCCTACTGGCTTCACTACCCGGCA........................................................................................................................................................................... 24 0 9 0.67 6 6 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATC......................................................................................................................................................................... 23 0 11 0.55 6 6 0 0 0
.................................TCCTCCAGAGCACACGCGA....................................................................................................................................................................................................... 19 1 2 0.50 1 1 0 0 0
......TCTTCTGCCGCGCCCAGAGCTCTG............................................................................................................................................................................................................................. 24 0 2 0.50 1 1 0 0 0
.........TCTGCCGCGCCCAGAGCTCTGGAGTC........................................................................................................................................................................................................................ 26 0 2 0.50 1 1 0 0 0
.....TTCTTCTGCCGCGCCCAGAGCTCTGGAG.......................................................................................................................................................................................................................... 28 0 2 0.50 1 0 1 0 0
.TGCATTCTTCTGCCGCGCCCAGAGCTC............................................................................................................................................................................................................................... 27 0 2 0.50 1 1 0 0 0
......TCTTCTGCCGCGCCCAGAGCTCT.............................................................................................................................................................................................................................. 23 0 2 0.50 1 1 0 0 0
.......CTTCTGCCGCGCCCAGAGCTCTGGAG.......................................................................................................................................................................................................................... 26 0 2 0.50 1 1 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCGGAT..................................................................................................................................................................... 27 0 9 0.33 3 3 0 0 0
............................................................ACTGGCTTCACTACCCGGCATCGGA...................................................................................................................................................................... 25 0 9 0.33 3 3 0 0 0
...........................................................TACTGGCTTTACTACCCGGCATCGGA...................................................................................................................................................................... 26 1 9 0.33 3 3 0 0 0
...........................................................TACTGGCTTTACTACCCGGCATCGG....................................................................................................................................................................... 25 1 9 0.33 3 3 0 0 0
...........................................................TACTGGCTGCACTACCCGGCATCGG....................................................................................................................................................................... 25 1 9 0.33 3 3 0 0 0
..................CGCAGAGCGCTGGAGTTCTCC.................................................................................................................................................................................................................... 21 3 4 0.25 1 0 0 1 0
............................................................ACTGGCTTCACTACCCGGCATCGG....................................................................................................................................................................... 24 0 9 0.22 2 2 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCGGAA..................................................................................................................................................................... 27 1 9 0.22 2 2 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCG........................................................................................................................................................................ 24 0 11 0.18 2 2 0 0 0
...............................................................GGCTTCACTACCCGGCATCGGATG.................................................................................................................................................................... 24 0 8 0.13 1 1 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCGGATG.................................................................................................................................................................... 28 0 8 0.13 1 1 0 0 0
........................................................TCCTACTGGCTTCACTACCCGGC............................................................................................................................................................................ 23 0 9 0.11 1 1 0 0 0
............................................................ACTGGCTTTACTACCCGGCATCGGA...................................................................................................................................................................... 25 1 9 0.11 1 1 0 0 0
...........................................................TACTGGCTTTACTACCCGGCATCGGAT..................................................................................................................................................................... 27 1 9 0.11 1 1 0 0 0
...........................................................TACTGGCTGCACTACCCGGCATCGGA...................................................................................................................................................................... 26 1 9 0.11 1 1 0 0 0
........................................................TCCTACTGGCTTTACTACCCGGCATCG........................................................................................................................................................................ 27 1 9 0.11 1 1 0 0 0
........................................................TCCTACTGGCTTTACTACCCGGCAT.......................................................................................................................................................................... 25 1 9 0.11 1 1 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCGGG...................................................................................................................................................................... 26 1 9 0.11 1 1 0 0 0
............................................................ACTGGCTTGACTACCCGGCATGGG....................................................................................................................................................................... 24 2 9 0.11 1 1 0 0 0
............................................................ACTGGCTTTACTACCCGGCATCGG....................................................................................................................................................................... 24 1 9 0.11 1 1 0 0 0
........................................................TCCTACTGGCTTCACTACCCGGCATC......................................................................................................................................................................... 26 0 9 0.11 1 1 0 0 0
...................................................................TCACTACCCGGCATCGGATG.................................................................................................................................................................... 20 0 10 0.10 1 0 1 0 0
.........................................................CCTACTGGCTTCACTACCCG.............................................................................................................................................................................. 20 0 10 0.10 1 1 0 0 0
...........................................................TACTGGCTTTACTACCCGGCATC......................................................................................................................................................................... 23 1 11 0.09 1 1 0 0 0
...........................................................TACTGTCTTCACTACCCGGCATCGT....................................................................................................................................................................... 25 2 11 0.09 1 1 0 0 0
...........................................................TACTGGCTTCACTACCCGGCATCA........................................................................................................................................................................ 24 1 11 0.09 1 1 0 0 0
............................................................ACTGGCTTCACTGCCCGGCATCG........................................................................................................................................................................ 23 1 11 0.09 1 1 0 0 0
...........................................................TACTGGCTTCCCTACCCGGCCTCG........................................................................................................................................................................ 24 2 11 0.09 1 0 0 0 1
...........................................................TACTGGCTTCACTACCCGGCAT.......................................................................................................................................................................... 22 0 11 0.09 1 1 0 0 0
...........................................................TACTGGCTTCACTACCCGG............................................................................................................................................................................. 19 0 12 0.08 1 1 0 0 0
...........................................................................CGGCATCGTATGAACTGC.............................................................................................................................................................. 18 2 14 0.07 1 0 0 1 0

Anti-sense strand reads

GACGTAAGAAGACGGCGCGGGTCTCGAGACCTCAGGAGGTCTCGTGTGCGCAAGAGAGGATGACCGAAGTGATGGGCCGTAGCCTACTTAACGCGCGCTTGAACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
**************************************************((((..(((..((((.........))))....))).))))...............................................................................................................************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 V057
head
.............................................GTGCGCAAGAGAGGATGACCGAAG...................................................................................................................................................................................... 24 0 2 1.00 2 2 0 0
..............................................TGCGCAAGAGAGGATGACCGAAG...................................................................................................................................................................................... 23 0 7 0.86 6 6 0 0
............................................TGTGCGCAAGAGAGGATGACCGAAG...................................................................................................................................................................................... 25 0 2 0.50 1 1 0 0
.............................................GTGCGCAAGAGAGGATGACCGAA....................................................................................................................................................................................... 23 0 2 0.50 1 1 0 0
...........................................GTGTGCGCAAGAGAGGATGACCG......................................................................................................................................................................................... 23 0 2 0.50 1 0 1 0
...............................................GCGCAAGAGAGGATGACCGAAG...................................................................................................................................................................................... 22 0 7 0.43 3 3 0 0
..............................................TGCGCAAGAGAGGTTGACCGAA....................................................................................................................................................................................... 22 1 7 0.29 2 2 0 0
..............................................TGCGCAAGAGAGGATGACCGAA....................................................................................................................................................................................... 22 0 7 0.29 2 2 0 0
...............................................GCGCAAGAGAGGACGACCGAAG...................................................................................................................................................................................... 22 1 7 0.14 1 1 0 0
..................................................CAAGAGAGGATGACCGAAG...................................................................................................................................................................................... 19 0 9 0.11 1 0 1 0
.....................................................................TGATGGGCCGTAGCCTAC.................................................................................................................................................................... 18 0 10 0.10 1 1 0 0
.................................................................GTAGTGAGGGGCCGTATCC....................................................................................................................................................................... 19 3 20 0.05 1 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_28:334389-334639 - dpe_1298 CTGCATTCTTCTGCCGCGCCCAGAGCTCTGGAGTCCTCCAGAGCACACGCGTTCTCTCCTACTGGCTTCACTACCCGGCATCGGATGAAT-TGCGCGCGAACTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
dp5 XL_group1a:1888624-1888728 - CTGCATTCTTCTGCCGCGCCCAGAGCTCTGGAGTCCTCCAGAGCATACGCGTTCTCTCCTACTGGCTTCGCTACCCGGCATCGGATGAATTTGCTCGCGAACTTG---------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
CTGCATTCTTCTGCCGCGCCCAGAGCTCTGGAGTCCTCCAGAGCACACGCGTTCTCTCCTACTGGCTTCACTACCCGGCATCGGATGAAT-TGCGCGCGAACTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
...........................................................TACTGGCTTCACTACCCGGCATCGGA.......................................................................................................................................................................2692.67240240000
......TCTTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2722.505500000
...........................................................TACTGGCTTCACTACCCGGCATCGG........................................................................................................................................................................2592.22200200000
.TGCATTCTTCTGCCGCGCCCAGAGC..................................................................................................................................................................................................................................2521.503030000
.........TCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2421.002110000
........................................................TCCTACTGGCTTCACTACCCGGCA............................................................................................................................................................................2490.676060000
...........................................................TACTGGCTTCACTACCCGGCATC..........................................................................................................................................................................23110.556060000
.................................TCCTCCAGAGCACACGCGA........................................................................................................................................................................................................1920.501010000
......TCTTCTGCCGCGCCCAGAGCTCTG..............................................................................................................................................................................................................................2420.501010000
.........TCTGCCGCGCCCAGAGCTCTGGAGTC.........................................................................................................................................................................................................................2620.501010000
.....TTCTTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2820.501100000
.TGCATTCTTCTGCCGCGCCCAGAGCTC................................................................................................................................................................................................................................2720.501010000
......TCTTCTGCCGCGCCCAGAGCTCT...............................................................................................................................................................................................................................2320.501010000
.......CTTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2620.501010000
...........................................................TACTGGCTTCACTACCCGGCATCGGAT......................................................................................................................................................................2790.333030000
............................................................ACTGGCTTCACTACCCGGCATCGGA.......................................................................................................................................................................2590.333030000
............................................................ACTGGCTTCACTACCCGGCATCGG........................................................................................................................................................................2490.222020000
...........................................................TACTGGCTTCACTACCCGGCATCGGAA......................................................................................................................................................................2790.222020000
...........................................................TACTGGCTTCACTACCCGGCATCG.........................................................................................................................................................................24110.182020000
...............................................................GGCTTCACTACCCGGCATCGGATG.....................................................................................................................................................................2480.131010000
...........................................................TACTGGCTTCACTACCCGGCATCGGATG.....................................................................................................................................................................2880.131010000
........................................................TCCTACTGGCTTCACTACCCGGC.............................................................................................................................................................................2390.111010000
...........................................................TACTGGCTTCACTACCCGGCATCGGG.......................................................................................................................................................................2690.111010000
........................................................TCCTACTGGCTTCACTACCCGGCATC..........................................................................................................................................................................2690.111010000
...................................................................TCACTACCCGGCATCGGATG.....................................................................................................................................................................20100.101100000
.........................................................CCTACTGGCTTCACTACCCG...............................................................................................................................................................................20100.101010000
...........................................................TACTGGCTTCACTACCCGGCATCA.........................................................................................................................................................................24110.091010000
...........................................................TACTGGCTTCACTACCCGGCAT...........................................................................................................................................................................22110.091010000
...........................................................TACTGGCTTCACTACCCGG..............................................................................................................................................................................19120.081010000
dp5
CTGCATTCTTCTGCCGCGCCCAGAGCTCTGGAGTCCTCCAGAGCATACGCGTTCTCTCCTACTGGCTTCGCTACCCGGCATCGGATGAATTTGCTCGCGAACTTG---------------------------------------------------------------------------------------------------------------------------------------------------SizeHit 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
...........................................................TACTGGCTTCGCTACCCGGCATCGGA.......................................................................................................................................................................26132.003203200000000
...........................................................TACTGGCTTCGCTACCCGGCATCGG........................................................................................................................................................................25129.002902900000000
......TCTTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................27112.001201200000000
...........................................................TACTGGCTTCGCTACCCGGCATCG.........................................................................................................................................................................2419.0090900000000
...........................................................TACTGGCTTCGCTACCCGGCATC..........................................................................................................................................................................2317.0070430000000
...........................................................TACTGGCTTCGCTACCCGG..............................................................................................................................................................................1916.0060600000000
...........................................................TACTGGCTTCGCTACCCGGCATCGGAT......................................................................................................................................................................2716.0060600000000
.........TCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2415.0050500000000
......TCTTCTGCCGCGCCCAGAGCTCTG..............................................................................................................................................................................................................................2414.0040400000000
............................................................ACTGGCTTCGCTACCCGGCATCGGA.......................................................................................................................................................................2514.0040400000000
...................................................................TCGCTACCCGGCATCGGATGAATT.................................................................................................................................................................2413.0030300000000
.......................................................................TACCCGGCATCGGATGAATTTGCTCGC..........................................................................................................................................................2713.0030000000300
...........................................................TACTGGCTTCGCTACCCGGCATCGGAA......................................................................................................................................................................2713.0030300000000
........TTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2513.0030300000000
............................................................ACTGGCTTCGCTACCCGGCATCGG........................................................................................................................................................................2412.0020200000000
.TGCATTCTTCTGCCGCGCCCAGAGC..................................................................................................................................................................................................................................2512.0020200000000
......................................................TCTCCTACTGGCTTCGCTACCCGGC.............................................................................................................................................................................2511.0010100000000
...................................................TTCTCTCCTACTGGCTTCGCTACC.................................................................................................................................................................................2411.0010100000000
...........................................................TACTGGCTTCGCTACCCGGCATCGGATG.....................................................................................................................................................................2811.0010100000000
......................................................TCTCCTACTGGCTTCGCTACCCGG..............................................................................................................................................................................2411.0010100000000
.............................................................CTGGCTTCGCTACCCGGCATCGG........................................................................................................................................................................2311.0010100000000
............................................................ACTGGCTTCGCTACCCGG..............................................................................................................................................................................1811.0010100000000
..............................................................................CATCGGATGAATTTGCTCGCGAACT.....................................................................................................................................................2511.0010100000000
......TCTTCTGCCGCGCCCAGAGCTCTGGAGT..........................................................................................................................................................................................................................2811.0010000000100
...........................................................TACTGGCTTCGCTACCCGGT.............................................................................................................................................................................2011.0010100000000
.........TCTGCCGCGCCCAGAGCTCTGGAGTCCT.......................................................................................................................................................................................................................2811.0010100000000
.........TCTGCCGCGCCCAGAGCTCTGG.............................................................................................................................................................................................................................2211.0010100000000
...........................................................TACTGGCTTCGCTACCCGGCA............................................................................................................................................................................2111.0010100000000
......................................................TCTCCTACTGGCTTCGCTACCC................................................................................................................................................................................2211.0010100000000
......TCTTCTGCCGCGCCCAGAGCTCTGGA............................................................................................................................................................................................................................2611.0010100000000
.........TCTGCCGCGCCCAGAGCTCTGGAGTCC........................................................................................................................................................................................................................2711.0010100000000
.......................................................CTCCTACTGGCTTCGCTACCCGG..............................................................................................................................................................................2311.0010100000000
......TCTTCTGCCGCGCCCAGA....................................................................................................................................................................................................................................1811.0010100000000
........TTCTGCCGCGCCCAGAGCTCTGGAA...........................................................................................................................................................................................................................2511.0010100000000
...........................................................TACTGGCTTCGCTACCCGGCATCGGATC.....................................................................................................................................................................2811.0010100000000
............................................................ACTGGCTTCGCTACCCGGCATA..........................................................................................................................................................................2211.0010100000000
...........................................................TACTGGCTTCGCTACCCGGCATCGGATT.....................................................................................................................................................................2811.0010100000000
........................................................TCCTACTGGCTTCGCTACCCGGCATC..........................................................................................................................................................................2611.0010000000100
......................................................TCTCCTACTGGCTTCGCTACCCGGCA............................................................................................................................................................................2611.0010100000000
...........................................................TACTGGCTTCGCTACCCGGCAT...........................................................................................................................................................................2211.0010100000000
......TCTTCTGCCGCGCCCAGAGCTC................................................................................................................................................................................................................................2211.0010100000000
.......CTTCTGCCGCGCCCAGAGCTCTGGAG...........................................................................................................................................................................................................................2611.0010100000000
....................................................TCTCTCCTACTGGCTTCGCTACCCGG..............................................................................................................................................................................2611.0010100000000
.............CCGCGCCCAGAGCTCTGGAGTC.........................................................................................................................................................................................................................2211.0010100000000
....................................................TCTCTCCTACTGGCTTCGCTACCC................................................................................................................................................................................2411.0010100000000
.............................................TACGCGTTCTCTCCTACTGGCT.........................................................................................................................................................................................22120.6780600000200
.............................................TACGCGTTCTCTCCTACTGG...........................................................................................................................................................................................20140.4360600000000
.............................................TACGCGTTCTCTCCTACTGGCTTC.......................................................................................................................................................................................24110.2730210000000
..............................................ACGCGTTCTCTCCTACTGGCTTC.......................................................................................................................................................................................23110.1820200000000
.................................TCCTCCAGAGCATACGCGTTCT.....................................................................................................................................................................................................22120.1720200000000
.................................TCCTCCAGAGCATACGCGTTCTC....................................................................................................................................................................................................23120.1720200000000
.........................................................................CCCGGCATCGGATGAATT.................................................................................................................................................................18120.0810100000000
.......................................................................TACCCGGCATCGGATGAATT.................................................................................................................................................................20120.0810100000000
.................................TCCTCCAGAGCATACGCGTTCTCTC..................................................................................................................................................................................................25120.0810100000000
.................................TCCTCCAGAGCATACGCGTTCTCTCC.................................................................................................................................................................................................26120.0810100000000
.......................................................................TACCCGGCATCGGATGAATTTGC..............................................................................................................................................................23120.0810010000000
.........................................AGCATACGCGTTCTCTCCTACTGGC..........................................................................................................................................................................................25120.0810100000000
....................................TCCAGAGCATACGCGTTCTCTCCTAC..............................................................................................................................................................................................26130.0810100000000
..............................................ACGCGTTCTCTCCTACTGGC..........................................................................................................................................................................................20130.0810100000000
.........................................AGCATACGCGTTCTCTCCTACTGG...........................................................................................................................................................................................24130.0810100000000
..........................................GCATACGCGTTCTCTCCTACTG............................................................................................................................................................................................22130.0810100000000
....................................TCCAGAGCATACGCGTTCTCTC..................................................................................................................................................................................................22140.0710100000000
....................................TCCAGAGCATACGCGTTCTCTCCT................................................................................................................................................................................................24140.0710100000000
....................................TCCAGAGCATACGCGTTCTCTCC.................................................................................................................................................................................................23140.0710100000000

Generated: 06/08/2015 at 04:00 PM