ID:

dpe_862

 Coordinate:

scaffold_16:1739324-1739474 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

Flybase annnotation

CDS [Dper\GL21047-cds]; exon [dper_GLEANR_2968:1]; intron [Dper\GL21047-in]

Repeatable elements

NameClassFamilyStrand
Hopers2DNAhAT-hobo-

Sense Strand Reads

--################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
GTATGGCTCTCTTCCGGCAGACGTCGCTAACATTGAACTACACAGAATACGTGCGAGAGAGACAGAAAATCAATCAGAACGTGCCGTCGAACGCTGCGTAGCCACTGCAAATTGATTTTCATTTTTGCTATAATATTGATCCTATCTGATCCTATTGATTCAGCAATTCGGCGTGGAAGGGAGTGGGAAAAAATTTGAAAAACATCTCTGCAAGTTCGATATGACAGGAGTGTGGATCAAAAGATTGGTTG
**************************************************..(((((((.....(((((((((((((.(((((.(((...))).))))).....)))...)))))))))).)))))))...........((((((((..(((..((((.........))))...)))..))).))))).............************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 V057
head
...........................................................................................................................................................TGATCCAGCAATGCCGCGTG............................................................................ 20 3 5 0.80 4 3 1 0
.............................................................................................................AATTGATTTTCGTTTTTGCTGG........................................................................................................................ 22 3 12 0.08 1 1 0 0
............................................................................................................................................................GATCCAGCAATGCCGCGTG............................................................................ 19 3 19 0.05 1 0 0 1
.....................................................................................................................................................................ATTCGGCGTGGATTGGTGT................................................................... 19 3 20 0.05 1 0 0 1

Anti-sense strand reads

CATACCGAGAGAAGGCCGTCTGCAGCGATTGTAACTTGATGTGTCTTATGCACGCTCTCTCTGTCTTTTAGTTAGTCTTGCACGGCAGCTTGCGACGCATCGGTGACGTTTAACTAAAAGTAAAAACGATATTATAACTAGGATAGACTAGGATAACTAAGTCGTTAAGCCGCACCTTCCCTCACCCTTTTTTAAACTTTTTGTAGAGACGTTCAAGCTATACTGTCCTCACACCTAGTTTTCTAACCAAC
**************************************************..(((((((.....(((((((((((((.(((((.(((...))).))))).....)))...)))))))))).)))))))...........((((((((..(((..((((.........))))...)))..))).))))).............************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V057
head
 V111
male body
.........................................................................................TTGCGACGCATCGGTGACGT.............................................................................................................................................. 20 0 2 0.50 1 0 1 0
..........................................................................................TGCGACGCATCGGTGACGTTTAACT........................................................................................................................................ 25 0 20 0.35 7 7 0 0
............................................CTTATGCACGCTCTCCCTGTCTTT....................................................................................................................................................................................... 24 1 3 0.33 1 1 0 0
..........................................................................................TGCGACGCATCGGTGACGTT............................................................................................................................................. 20 0 20 0.20 4 0 0 4
.................................................................................ACGGCAGTTGGCGACGCAT....................................................................................................................................................... 19 2 7 0.14 1 1 0 0
.........................................................................................TTGAGACGCATCGGTTACGT.............................................................................................................................................. 20 2 9 0.11 1 1 0 0
...................................................ACGCTCTCTCTGTCTTTTA..................................................................................................................................................................................... 19 0 20 0.10 2 2 0 0
..........................................................................................TGCGACGCATCGGTGACGT.............................................................................................................................................. 19 0 20 0.05 1 1 0 0
................................................TGCACGCTCTCTCTGTCTTT....................................................................................................................................................................................... 20 0 20 0.05 1 1 0 0
.........................................................................................TGGCGACGCATCGGTGACGT.............................................................................................................................................. 20 1 20 0.05 1 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_16:1739274-1739524 - dpe_862 GTATGGCTCTCTTCCGGCAGACGTCGCTAAC--ATTGAACTACA---CAGAATACGTGCGAGAGAGACAGAAAATCAATCAGAACGTGCCGTCGAACGCTGCGTAGCCACTGCAAATTGATTTTCATTTTTGCTATAATATTGATCCT-ATCTGATCCTATTGATTCAGCAATTCGGCGTGGAAGGGAGTG-GGAAAAAATTTGAAAAACATCTCTGCAAGT-TCGATATGACAGGAGTGTGGAT-CAAAAGATTGGTTG
dp5 4_group4:5220348-5220601 + GTATGGCTCTCTTCCGGCAGACGTCGCTAAC--ATTGAACTAAGAAGAAGAATACGTGCGAGAGAGACAGAAAATCAATCAGAATGTGCCGTCGAACGCTGCGTAGCCACTGCAAATTGATTTTCATTTTTGCTATAATATTGATCCT-ATCTGATCCTATTAATTCAGCAATTCGGCGTGGAAGGGAGTG-GGAAAAAATTTGAAAAACATCTCTGCAAGT-TCGATATCACAGGAGTGTGGAT-CAAAAGATTGGTTG
droWil2 scf2_1100000004943:3594004-3594093 - A----------ATTC-----------------------------------------------------------------------------C---------------------------------------------------------------------------------GGGGGCGGAAGGGGGCGTGGCAAAAATTTGAAACAAAC-TCGATAAGCGTACATACTACACGAGACTGCAT-ACCAAATTTGGTGG
droVir3 scaffold_13047:12593438-12593479 - T----------T----------------------------------------------------------------------------------------------------------GATAGTCGTTTTTTATATGATCTTTATCCT-ATCCGATGCT-----------------------------------------------------------------------------------------------------
droMoj3 scaffold_6482:2069705-2069732 - A----------CACG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTATGCAT-GCAAATTTCAGCTC
droGri2 scaffold_15110:23390417-23390444 + G----------CGAG-----------------------------------------------AGAGACAGAAAATCAGACGGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC
droKik1 scf7180000302276:89789-89865 - C----------GGCG------------------------------------------------------------------------------------------------------------------------------------------------------------CCTTCGAGTGGCAAGAAGAG-GGGAGAAATCAGAAAAAAATGTCTGCAATT----AAATGCAAGAAATGTGATT-CA-----------A
droRho1 scf7180000763774:638-716 + C----------AGCC-------GCCGCACAATTATTGTACTACA---CAGAGTCAGAGAGAGAGAGAGAGAGAGAGAGTGAGACAGTGCGAGAGAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------TGC
droBia1 scf7180000301585:100226-100270 + T----------TTTT--------------------------------------------------------------------------------------------------------------------GCTAAAATGTATGTCTT-ATCAATTCCTATCGATTCAAA----------------------------------------------------------------------------------------AA
droTak1 scf7180000415773:358727-358788 + A----------AATC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAAAAATAAATCTGATAGA-TAGATAGGTGAAAAATAGGGATAACAAATATCAATTA
droEug1 scf7180000409672:4996110-4996151 + G----------CCGG-----------------------------------------------------------------------------CAATTGCGGCACAGCGACTGTCAATTGATTTTAA-----------------------------------------------------------------------------------------------------------------------------------TTT
droSim2 node_38552:934-965 - C----------CTCCAACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A
droSec2 scaffold_41:188046-188092 - T----------T----------------------------------------------------------------------------------------------------------GATTTCGATTTTTGCCATAATATTAATCTA-CTTTTATACTTTTG------------------------------------------------------------------------------------------------A
droYak3 v2_chrUn_1932:305-357 + C----------GCTG--------------------------------------------------------------------------------------CGCAGC-------AATCGATTTTCATTAATGGCATAATATTAGTCCTGATCTAA--------------------------------------------------------------------------------------------------------T

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
GTATGGCTCTCTTCCGGCAGACGTCGCTAAC--ATTGAACTACA---CAGAATACGTGCGAGAGAGACAGAAAATCAATCAGAACGTGCCGTCGAACGCTGCGTAGCCACTGCAAATTGATTTTCATTTTTGCTATAATATTGATCCT-ATCTGATCCTATTGATTCAGCAATTCGGCGTGGAAGGGAGTG-GGAAAAAATTTGAAAAACATCTCTGCAAGT-TCGATATGACAGGAGTGTGGAT-CAAAAGATTGGTTGSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
No Reads
dp5
GTATGGCTCTCTTCCGGCAGACGTCGCTAAC--ATTGAACTAAGAAGAAGAATACGTGCGAGAGAGACAGAAAATCAATCAGAATGTGCCGTCGAACGCTGCGTAGCCACTGCAAATTGATTTTCATTTTTGCTATAATATTGATCCT-ATCTGATCCTATTAATTCAGCAATTCGGCGTGGAAGGGAGTG-GGAAAAAATTTGAAAAACATCTCTGCAAGT-TCGATATCACAGGAGTGTGGAT-CAAAAGATTGGTTGSizeHit 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
...................................TGAACTAAGAAGAAGAATACGTGC.........................................................................................................................................................................................................2411.0010000000010
.................................................GAATACGTGCGAGAGAGACAG..............................................................................................................................................................................................2111.0010100000000
................................................................................................................................................................................................................................CGATATCACAGGAGTGTGGAT-..............21200.801600001600000
...............................................................................................................................................................................................................................TCGATATCACAGGAGTGTGG.................20200.2040300010000
.............................................................................................................................................................................................................................T-TCGATATCACAGGAGTGTGG.................21200.2040400000000
.................................................................................................GCTGCGTAGCCACTGCAAATT..............................................................................................................................................21200.1530300000000
.............................................................................................................................................................................................................................T-TCGATATCACAGGAGTGTG..................20200.1530100011000
..ATGGCTCTCTTCCGGCAGACG.............................................................................................................................................................................................................................................2190.1110000000010
...............................................................................................................................................................................................................................TCGATATCACAGGAGTGTGGA................21200.1020000011000
...............................................................................................................................................................................................................................TCGATATCACAGGAGTGTGGAT-..............22200.1020200000000
................................................................................................................................................................................................................................CGATATCACAGGAGTGTGGAT-CAAA..........25150.0710000000100
...................................................................................................................................................................................................................................TATCACAGGAGTGTGGAT-CAAAA.........23150.0710100000000
................................................................................................................................................................................................................................CGATATCACAGGAGTGTGGAT-C.............22200.0510100000000
.......................................................GTGCGAGAGAGACAGAAAA..........................................................................................................................................................................................19200.0510000000010
................................................................................................CGCTGCGTAGCCACTGCAAATTG.............................................................................................................................................23200.0510100000000
......................................................CGTGCGAGAGAGACAGAAAAT.........................................................................................................................................................................................21200.0510000010000
.......................................................GTGCGAGAGAGACAGAAA...........................................................................................................................................................................................18200.0510000000010
.............................................................................................................................................................................................................................T-TCGATATCACAGGAGTGTGGA................22200.0510100000000
............................................................................................................................................................................................................................GT-TCGATATCACAGGAGTGTGG.................22200.0510100000000
droWil2
A----------ATTC-----------------------------------------------------------------------------C---------------------------------------------------------------------------------GGGGGCGGAAGGGGGCGTGGCAAAAATTTGAAACAAAC-TCGATAAGCGTACATACTACACGAGACTGCAT-ACCAAATTTGGTGGSizeHit CountTotal NormTotalM020
Head		M045
Female-body		V117
Male-body		V118
Embryo		V119
Head
.......................................................................................................................................................................................................................GATAAGCGTACATACTACACGAGACTG..................27200.05100010
..........................................................................................................................................................................................................................................CGAGACTGCAT-ACCAAATTTGG...22200.05101000
..........................................................................................................................................................................................................................................CGAGACTGCAT-ACCAAATTTGGTGG25200.05100010
droVir3
T----------T----------------------------------------------------------------------------------------------------------GATAGTCGTTTTTTATATGATCTTTATCCT-ATCCGATGCT-----------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotalM027
Male-body		M028
Head		M047
Female-body		M061
Embryo		SRR060654
Ovary		SRR060655
Testis		SRR060656
Ovary		SRR060657
Testis		SRR060658
Ovary		SRR060659
Testis		SRR060660
Ovary		SRR060661
Embryo		SRR060662
Embryo		SRR060663
Embryo		SRR060664
Male-body		SRR060665
Female-body		SRR060666
Male-body		SRR060667
Female-body		SRR060668
Male-body		SRR060669
Female-body		SRR060670
Testis		SRR060671
Male-body		SRR060672
Female-body		SRR060673
Ovary		SRR060674
Ovary		SRR060675
Ovary		SRR060676
Ovary		SRR060677
Ovary		SRR060678
Testis		SRR060679
Testis		SRR060680
Testis		SRR060681
Testis		SRR060682
Embryo		SRR060683
Testis		SRR060684
Embryo		SRR060685
Embryo		SRR060686
Embryo		SRR060687
Embryo		SRR060688
Ovary		SRR060689
Testis		SRR1106712
embryo_0-2h		SRR1106713
embryo_0-2h		SRR1106714
embryo_2-4h		SRR1106715
embryo_4-6h		SRR1106716
embryo_4-6h		SRR1106717
embryo_6-8h		SRR1106718
embryo_6-8h		SRR1106719
embryo_8-10h		SRR1106720
embryo_8-10h		SRR1106721
embryo_10-12h		SRR1106722
embryo_10-12h		SRR1106723
embryo_12-14h		SRR1106724
embryo_12-14h		SRR1106725
embryo_14-16h		SRR1106726
embryo_14-16h		SRR1106727
larvae		SRR1106728
larvae		SRR1106729
mixed whole adult body		SRR1106730
embryo_16-30h		V047
Embryo		V053
Head		V116
Male-body		GSM1528803
follicle cells
No Reads
droMoj3
A----------CACG-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGTATGCAT-GCAAATTTCAGCTCSizeHit CountTotal NormTotalM046
Female-body		V041
Embryo		V049
Head		V056
Head		M060
Embryo		V110
Male-body
No Reads
droGri2
G----------CGAG-----------------------------------------------AGAGACAGAAAATCAGACGGA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACSizeHit CountTotal NormTotalM041
Female-body		V109
Male-body
No Reads
droKik1
C----------GGCG------------------------------------------------------------------------------------------------------------------------------------------------------------CCTTCGAGTGGCAAGAAGAG-GGGAGAAATCAGAAAAAAATGTCTGCAATT----AAATGCAAGAAATGTGATT-CA-----------ASizeHit CountTotal NormTotal
No Reads
droRho1
C----------AGCC-------GCCGCACAATTATTGTACTACA---CAGAGTCAGAGAGAGAGAGAGAGAGAGAGAGTGAGACAGTGCGAGAGAA-----------------------------------------------------------------------------------------------------------------------------------------------------------------TGCSizeHit CountTotal NormTotal
No Reads
droBia1
T----------TTTT--------------------------------------------------------------------------------------------------------------------GCTAAAATGTATGTCTT-ATCAATTCCTATCGATTCAAA----------------------------------------------------------------------------------------AASizeHit CountTotal NormTotal
No Reads
droTak1
A----------AATC-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAAAAAATAAATCTGATAGA-TAGATAGGTGAAAAATAGGGATAACAAATATCAATTASizeHit CountTotal NormTotal
No Reads
droEug1
G----------CCGG-----------------------------------------------------------------------------CAATTGCGGCACAGCGACTGTCAATTGATTTTAA-----------------------------------------------------------------------------------------------------------------------------------TTTSizeHit CountTotal NormTotal
No Reads
droSim2
C----------CTCCAACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASizeHit CountTotal NormTotalM023
Head		M024
Male-body		M025
Embryo		M053
Female-body		O001
Testis		O002
Head		SRR553485
Ovary		SRR553486
Ovary		SRR553487
Ovary		SRR553488
Ovary		SRR618934
Ovary		V044
Embryo		SRR902008
Ovary		SRR902009
Testis		SRR1275487
Male larvae		SRR1275485
Male prepupae		SRR1275483
Male prepupae
............TCCAACAGACGTCGCTTGC--ATTGGAC............................................................................................................................................................................................................................2652.0010000000000000100000
............TCCAACAGACGTCGCTTGC--ATTGGA.............................................................................................................................................................................................................................2550.80400000010011010000
...............AACAGACGTCGCTTGC--ATTGGACCA..........................................................................................................................................................................................................................2550.80400000012100000000
............TCCAACAGACGTCGCTTGC--ATTGGACA...........................................................................................................................................................................................................................2750.60300000000000030000
...............AACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A2750.60300000020010000000
............TCCAACAGACGTCGCTTGC--ATTGGACC...........................................................................................................................................................................................................................2750.60300000010000020000
............TCCAACAGACGTCGCTTGC--AT.................................................................................................................................................................................................................................2150.40200000011000000000
.....................CGTCGCTTGC--ATTGGACC...........................................................................................................................................................................................................................1850.40200000000002000000
...........CTCCAACAGACGTCGCTTGC--ATTGGAC............................................................................................................................................................................................................................2750.40200000010000010000
............TCCAACAGACGTCGCT........................................................................................................................................................................................................................................1650.40200000000002000000
..............CAACAGACGTCGCTTGC--ATTGGACC...........................................................................................................................................................................................................................2550.40200200000000000000
..............CAACAGACGTCGCTTGC--ATTGGAC............................................................................................................................................................................................................................2450.20100000010000000000
............TCCAACAGACGTCGCTTGC--...................................................................................................................................................................................................................................1950.20100000010000000000
............TCCAACAGACGTCGCTTGC--ATTGGACCA..........................................................................................................................................................................................................................2850.20100000000000010000
............TCCAACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------.2950.20100000000000010000
...............AACAGACGTCGCTTGC--ATTGGACC...........................................................................................................................................................................................................................2450.20100000000001000000
..............CAACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A2850.20100000010000000000
C----------CTCCAACAGACGTCGCTTGC--ATTGGAC............................................................................................................................................................................................................................2850.20100000000000010000
..............CAACAGACGTCGCTTGC--ATTG...............................................................................................................................................................................................................................2150.20100000000001000000
............TCCAACAGACGTCGCTTGC--ATTGGAA............................................................................................................................................................................................................................2650.20100000000000010000
.....................CGTCGCTTGC--ATTGGA.............................................................................................................................................................................................................................1650.20100000000001000000
.....................CGTCGCTTGC--ATTGG..............................................................................................................................................................................................................................1550.20100000000001000000
................ACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A2650.20100000010000000000
............TCCAACAGACGTCGCTTGC--ATT................................................................................................................................................................................................................................2250.20100000000000010000
...............AACAGACGTCGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------.2650.20100000000001000000
...............AACAGACGTCGCTTGC--ATTGGAC............................................................................................................................................................................................................................2350.20100000000000010000
.................CAGACGTCGCTTGC--ATT................................................................................................................................................................................................................................1750.20100000000001000000
........................CGCTTGC--ATTGGACC...........................................................................................................................................................................................................................1560.17100000000001000000
........................CGCTTGC--ATTGGACCAC------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A1860.17100000000001000000
......................GTCGCTTGC--ATTGGACC...........................................................................................................................................................................................................................1760.17100000000001000000
droSec2
T----------T----------------------------------------------------------------------------------------------------------GATTTCGATTTTTGCCATAATATTAATCTA-CTTTTATACTTTTG------------------------------------------------------------------------------------------------ASizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
No Reads
droYak3
C----------GCTG--------------------------------------------------------------------------------------CGCAGC-------AATCGATTTTCATTAATGGCATAATATTAGTCCTGATCTAA--------------------------------------------------------------------------------------------------------TSizeHit CountTotal NormTotalM026
Head		M043
Female-body		M056
Embryo		V046
Embryo		V052
Head		V058
Head		V120
Male-body		SRR1275488
Male larvae		SRR1275486
Male prepupae		SRR1275484
Male prepupae		GSM1528802
follicle cells
No Reads

Generated: 06/08/2015 at 03:19 PM