ID:

dpe_323

 Coordinate:

scaffold_97:112444-112507 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-25.2 -25.0 -24.9

Flybase annnotation

intergenic

No Repeatable elements found

mature
  1. scaffold_31:74986-75009 -
  2. scaffold_253:10866-10889 -
  3. dpe_323  scaffold_97:112445-112468 -
  4. scaffold_3120:1301-1324 +
  5. scaffold_4095:11-34 +
star

Sense Strand Reads

ATTTAGAATGGTCGATCGTTCATCTACATACTTTTCATATAGCCGTCTCTTCGGTATTTTCCTGGAGTGGCCATACATTTATGGATTCTTAATCTAAGCTAGGGATGCCGTATTGGCTGATATAGGTTGTAATGGGGCTGCCGTACTGAGTGATAGGGGTTATC
***********************************....((((((......(((((((..(((((..((((((((....))))).........)))..))))))))))))...))))))..........*********************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 V042
embryo
 M021
embryo
.........................................................................................TAATCTAAGCTAGGGATGCCGTAT................................................... 24 0 5 4.20 21 21 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCGTAT................................................... 25 0 5 4.00 20 18 0 2 0
........................................................................................TTAATCTAAGCTAGGGATGCCGTA.................................................... 24 0 5 2.20 11 11 0 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGCCGTAC.................. 24 1 7 1.29 9 9 0 0 0
............................................................................................TCTAAGCTAGGGATGCCGTAT................................................... 21 0 5 1.00 5 1 0 0 4
........................................................................................TTAATCTAAGCTAGGGACGCCGTAT................................................... 25 1 6 0.83 5 5 0 0 0
.........................................................................................TAATCTAAGCTAGGGACGCCGTAT................................................... 24 1 6 0.67 4 4 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCGT..................................................... 23 0 5 0.60 3 3 0 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGCCGTAC.................. 24 0 7 0.57 4 4 0 0 0
.....................................................................................................................TGATATAGGTTGTAATGGGACTG........................ 23 1 2 0.50 1 1 0 0 0
.................................................................................................................TGGCTGATATAGGTTGTAATGGGAC.......................... 25 1 2 0.50 1 1 0 0 0
..............................................................................................TAAGCTAGGGATGCCGTATTGGCTGA............................................ 26 0 5 0.40 2 2 0 0 0
.............................................................................................CTAAGCTAGGGATGCCGTAT................................................... 20 0 5 0.40 2 2 0 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCGTATTGG................................................ 27 0 5 0.40 2 2 0 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCGTATTG................................................. 26 0 5 0.40 2 2 0 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCGTA.................................................... 23 0 5 0.40 2 2 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCGTATA.................................................. 26 1 5 0.40 2 2 0 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGCCGTACTG................ 26 1 6 0.33 2 2 0 0 0
...........................................................................................................................................GCCGTACTGAGTGATAGGG...... 19 0 6 0.33 2 0 2 0 0
.................................................................................................................TGGCTGATATAGGTTGTAATGGG............................ 23 0 4 0.25 1 0 0 1 0
......................................................................................TCTTAATCTAAGCTAGGGATGCCG...................................................... 24 0 4 0.25 1 1 0 0 0
..................................................................................................................GGCTGATATAGGTTGTAATGGGAA.......................... 24 2 4 0.25 1 1 0 0 0
.....................................................................................TTCTTAATCTAAGCTAGGGATGCCG...................................................... 25 0 4 0.25 1 1 0 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCGTATA.................................................. 25 1 5 0.20 1 1 0 0 0
........................................................................................................................................GCTGCCGTACTGAGTGATAGGG...... 22 0 5 0.20 1 0 1 0 0
.........................................................................................TAATCTAAGCTAGGGACGCCGTATTGG................................................ 27 1 5 0.20 1 1 0 0 0
..................................................................................................CTAGGGATGCCGTATTGGCTG............................................. 21 0 5 0.20 1 1 0 0 0
................................................................................................................................GTAATGGGGCTGCCGTACTGAGTGA........... 25 0 5 0.20 1 0 1 0 0
....................................................................................................................................TGGGGCTGCCGTACTGAGTGATAGGG...... 26 0 5 0.20 1 0 1 0 0
......................................................................................................................................GGGCTGCCGTACTGAGTGATAGGGG..... 25 0 5 0.20 1 0 1 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCGTATT.................................................. 25 0 5 0.20 1 1 0 0 0
..........................................................................................................................AAGGTTGTAATGGGACTGCCGTACTGA............... 27 2 5 0.20 1 1 0 0 0
....................................................................................................................................TGGGGCTGCCGTACTGAGTGATAGG....... 25 0 5 0.20 1 0 1 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGCCGTACTGA............... 27 1 5 0.20 1 1 0 0 0
.............................................................................................................................GTTGTAATGGGGCTGCCGTACTGAGTGA........... 28 0 5 0.20 1 0 1 0 0
........................................................................................TTAATCTAAGCTAGGGACGCCGTATTG................................................. 27 1 5 0.20 1 0 1 0 0
............................................................................................TCTAAGCTAGGGATGCCGTATTG................................................. 23 0 5 0.20 1 1 0 0 0
..........................................................................................AATCTAAGCTAGGGATGCCGTAT................................................... 23 0 5 0.20 1 1 0 0 0
........................................................................................TTAATCTAGGCTAGGGATGCCGTAT................................................... 25 1 5 0.20 1 1 0 0 0
...................................................................................................TAGGGATGCCGTATTGGCTGAAAAA........................................ 25 2 5 0.20 1 1 0 0 0
.....................................................................................................................................GGGGCTGCCGTACTGAGTGATAGG....... 24 0 5 0.20 1 0 1 0 0
........................................................................................TTAATCTATGCTAGGGATGCCGT..................................................... 23 1 5 0.20 1 1 0 0 0
...............................................................................................................................................TACTGAGTGATAGGGGTTA.. 19 0 6 0.17 1 0 1 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCG...................................................... 22 0 6 0.17 1 1 0 0 0
..........................................................................................AATCTAAGCTAGGGATGCCG...................................................... 20 0 6 0.17 1 1 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCATAT................................................... 25 1 6 0.17 1 1 0 0 0
..........................................................................................AATCTAAGCTAGGGACGCCGTAT................................................... 23 1 6 0.17 1 1 0 0 0
..........................................................................................................................................TGCCGTACTGAGTGATAGGGGT.... 22 0 6 0.17 1 0 1 0 0
.........................................................................................TAATCTAAGCTAGGGATGCCG...................................................... 21 0 6 0.17 1 1 0 0 0
...........................................................................................................................AGGTTGTAATGGGGCTGCCGTACTG................ 25 0 6 0.17 1 0 1 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCGC..................................................... 23 1 6 0.17 1 1 0 0 0
..........................................................................................................................................TGCCGTACTGAGTGATAGGG...... 20 0 6 0.17 1 0 1 0 0
..........................................................................................................................TAGGGTGTAATGGGGCTGCCGTACT................. 25 1 6 0.17 1 1 0 0 0
...............................................................................................AAGCTAGGGACGCCGTAT................................................... 18 1 6 0.17 1 1 0 0 0
.....................................................................................................................................GGGGCTGCCGTACTGAGCGATAGGG...... 25 1 6 0.17 1 0 1 0 0
............................................................................................TCTAAGCTAGGGATGCCGCATTTG................................................ 24 2 6 0.17 1 0 0 1 0
..........................................................................................................................................TGCCGTACTGAGTGATAGGGGTT... 23 0 6 0.17 1 0 1 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGCCGTACTGAC.............. 28 2 6 0.17 1 1 0 0 0
.........................................................................................................................ATAGGTTGTAATGGGACTGCC...................... 21 1 6 0.17 1 1 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCCGTAA................................................... 25 1 6 0.17 1 1 0 0 0
...........................................................................................................................AGGTTGTAATGGGGCTGCCGTA................... 22 0 7 0.14 1 1 0 0 0
..........................................................................................................................TAGGTTGTGATGGGACTGCCGTAC.................. 24 2 7 0.14 1 1 0 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGCCGT.................... 22 0 7 0.14 1 0 1 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGCCG..................... 21 0 7 0.14 1 1 0 0 0
.........................................................................................TAATCTAAGCTAGCGATGCCGTAT................................................... 24 1 7 0.14 1 1 0 0 0
........................................................................................TTAATCTAAGCTAGGGATGCC....................................................... 21 0 7 0.14 1 1 0 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGCCGTA................... 23 0 7 0.14 1 1 0 0 0
............................................................................................................................GGTTGTAATGGGACTGCCGTAC.................. 22 1 7 0.14 1 1 0 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGCCATAC.................. 24 2 8 0.13 1 1 0 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGCC...................... 20 0 8 0.13 1 1 0 0 0
..........................................................................................................................TAGGTTGTAATGGGGCTGC....................... 19 0 8 0.13 1 0 1 0 0
..........................................................................................................................TAGGTTGTAATGGGACTGC....................... 19 1 8 0.13 1 1 0 0 0
.....................................................................................................................................GGTGCTGCCGCACTGAGGGA........... 20 3 20 0.05 1 1 0 0 0

Anti-sense strand reads

TAAATCTTACCAGCTAGCAAGTAGATGTATGAAAAGTATATCGGCAGAGAAGCCATAAAAGGACCTCACCGGTATGTAAATACCTAAGAATTAGATTCGATCCCTACGGCATAACCGACTATATCCAACATTACCCCGACGGCATGACTCACTATCCCCAATAG
***********************************....((((((......(((((((..(((((..((((((((....))))).........)))..))))))))))))...))))))..........*********************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V057
head
 V111
male body
..........................................................................................................CGGCATAACCGACTATATCCAACATT................................ 26 0 1 2.00 2 2 0 0
............................................................................................................GCATAACCGACTATATCCAACATT................................ 24 0 2 0.50 1 1 0 0
.........................................................................................................ACGGCACCACCGACTAGATCC...................................... 21 3 8 0.13 1 0 1 0
...........................................GGAGAGAAGCGATAAAAG....................................................................................................... 18 2 20 0.05 1 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_97:112394-112557 - dpe_323 AT---TTAGAATGGTCGATCGTTC-----------------------ATCTACATACTTTTCATATAGCCGTCTCTTCGGTATTT------TCCTGGAGTGGCCATACATTTATGGATTCTTAATCTAAGCTAGGGATGCCGTATTGGCTGATATAGGTTGTAATGGGGCTGCCGTACTGAGTGATAGGGGTTATC
dp5 Unknown_group_187:8908-9071 - AT---TTAGAATGATCGATCGTTC-----------------------ATCTACATACTTTTCATATGGCCGTCTCTTCGGTATTT------TCCTGAAGTGGCCATACATTTATGGATTCTTAATCTAAGCTAGGGATGCCGTATTGGCTGATATAGGTTGTAATGGGGCTGCCGTACTGAGTGATAGGGGTTATC
droKik1 scf7180000300980:7949-8029 - AC---ACAGAATGGAAGAATTAGCGATGCGCTTCCAGACTCCTGTTAATTTACATAGACTTCACATAATAAT--TATCGGTATCT------T--------------------------------------------------------------------------------------------------------
droEle1 scf7180000491121:39573-39593 - AAGTTTCAGAATGACCTCTCG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droRho1 scf7180000762369:2931-2972 + CG---TTCG----------------------------------------CTCTATACTCCTCATATATCCATCTCCTTGGTTTTT---------------------------------------------------------------------------------------------------------------
droBia1 scf7180000300379:682-695 - AA------GAATGTCCAATC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droTak1 scf7180000414657:5267-5358 + AA---GAATGATTAACATTCGCCC---GAT--TACAGAGT-------------ATGTTATTCTTAATGTTAACTTAACAGTCGTTTATCGGTCGTAAGGTGACCATATACTCA-----------------------------------------------------------------------------------
droEug1 scf7180000409171:56293-56302 - AT---CTAGAATG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSim2 node_1223:2028-2031 - TT---TT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droSec2 scaffold_936:706-801 - GT---TAAGCACACGCCACCGAATGCCGCG--------------------------TCTCGCGTATATTCCTCTTTACTTATGCT------CTCTGAAGTGTGTATGCGTTTGTGAG---------TGAGCTAGGTATAC--------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
AT---TTAGAATGGTCGATCGTTC-----------------------ATCTACATACTTTTCATATAGCCGTCTCTTCGGTATTT------TCCTGGAGTGGCCATACATTTATGGATTCTTAATCTAAGCTAGGGATGCCGTATTGGCTGATATAGGTTGTAATGGGGCTGCCGTACTGAGTGATAGGGGTTATCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTAT...................................................2454.20210210000
........................................................................................................................TTAATCTAAGCTAGGGATGCCGTAT...................................................2554.00200182000
........................................................................................................................TTAATCTAAGCTAGGGATGCCGTA....................................................2452.20110110000
............................................................................................................................TCTAAGCTAGGGATGCCGTAT...................................................2151.005410000
........................................................................................................................TTAATCTAAGCTAGGGATGCCGT.....................................................2350.603030000
..........................................................................................................................................................TAGGTTGTAATGGGGCTGCCGTAC..................2470.574040000
..............................................................................................................................TAAGCTAGGGATGCCGTATTGGCTGA............................................2650.402020000
.............................................................................................................................CTAAGCTAGGGATGCCGTAT...................................................2050.402020000
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTATTGG................................................2750.402020000
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTATTG.................................................2650.402020000
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTA....................................................2350.402020000
........................................................................................................................TTAATCTAAGCTAGGGATGCCGTATA..................................................2650.402020000
...........................................................................................................................................................................GCCGTACTGAGTGATAGGG......1960.332000002
.................................................................................................................................................TGGCTGATATAGGTTGTAATGGG............................2340.251001000
......................................................................................................................TCTTAATCTAAGCTAGGGATGCCG......................................................2440.251010000
..................................................................................................................................................GGCTGATATAGGTTGTAATGGGAA..........................2440.251010000
.....................................................................................................................TTCTTAATCTAAGCTAGGGATGCCG......................................................2540.251010000
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTATA..................................................2550.201010000
........................................................................................................................................................................GCTGCCGTACTGAGTGATAGGG......2250.201000001
..................................................................................................................................CTAGGGATGCCGTATTGGCTG.............................................2150.201010000
................................................................................................................................................................GTAATGGGGCTGCCGTACTGAGTGA...........2550.201000001
....................................................................................................................................................................TGGGGCTGCCGTACTGAGTGATAGGG......2650.201000001
......................................................................................................................................................................GGGCTGCCGTACTGAGTGATAGGGG.....2550.201000001
.........................................................................................................................TAATCTAAGCTAGGGATGCCGTATT..................................................2550.201010000
....................................................................................................................................................................TGGGGCTGCCGTACTGAGTGATAGG.......2550.201000001
.............................................................................................................................................................GTTGTAATGGGGCTGCCGTACTGAGTGA...........2850.201000001
............................................................................................................................TCTAAGCTAGGGATGCCGTATTG.................................................2350.201010000
..........................................................................................................................AATCTAAGCTAGGGATGCCGTAT...................................................2350.201010000
.....................................................................................................................................................................GGGGCTGCCGTACTGAGTGATAGG.......2450.201000001
...............................................................................................................................................................................TACTGAGTGATAGGGGTTA..1960.171000001
........................................................................................................................TTAATCTAAGCTAGGGATGCCG......................................................2260.171010000
..........................................................................................................................AATCTAAGCTAGGGATGCCG......................................................2060.171010000
..........................................................................................................................................................................TGCCGTACTGAGTGATAGGGGT....2260.171000001
.........................................................................................................................TAATCTAAGCTAGGGATGCCG......................................................2160.171010000
...........................................................................................................................................................AGGTTGTAATGGGGCTGCCGTACTG................2560.171000001
........................................................................................................................TTAATCTAAGCTAGGGATGCCGC.....................................................2360.171010000
..........................................................................................................................................................................TGCCGTACTGAGTGATAGGG......2060.171000001
..........................................................................................................................................................................TGCCGTACTGAGTGATAGGGGTT...2360.171000001
........................................................................................................................TTAATCTAAGCTAGGGATGCCGTAA...................................................2560.171010000
...........................................................................................................................................................AGGTTGTAATGGGGCTGCCGTA...................2270.141010000
..........................................................................................................................................................TAGGTTGTAATGGGGCTGCCGT....................2270.141000001
..........................................................................................................................................................TAGGTTGTAATGGGGCTGCCG.....................2170.141010000
........................................................................................................................TTAATCTAAGCTAGGGATGCC.......................................................2170.141010000
..........................................................................................................................................................TAGGTTGTAATGGGGCTGCCGTA...................2370.141010000
..........................................................................................................................................................TAGGTTGTAATGGGGCTGCC......................2080.131010000
..........................................................................................................................................................TAGGTTGTAATGGGGCTGC.......................1980.131000001
dp5
AT---TTAGAATGATCGATCGTTC-----------------------ATCTACATACTTTTCATATGGCCGTCTCTTCGGTATTT------TCCTGAAGTGGCCATACATTTATGGATTCTTAATCTAAGCTAGGGATGCCGTATTGGCTGATATAGGTTGTAATGGGGCTGCCGTACTGAGTGATAGGGGTTATCSizeHit 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
.................................................................................................................................................................TAATGGGGCTGCCGTACTGA...............2060.3320200000000
.....................................................................CGTCTCTTCGGTATTT------TCCTG....................................................................................................2140.2510100000000
droKik1
AC---ACAGAATGGAAGAATTAGCGATGCGCTTCCAGACTCCTGTTAATTTACATAGACTTCACATAATAAT--TATCGGTATCT------T--------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
AAGTTTCAGAATGACCTCTCG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droRho1
CG---TTCG----------------------------------------CTCTATACTCCTCATATATCCATCTCCTTGGTTTTT---------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droBia1
AA------GAATGTCCAATC--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
AA---GAATGATTAACATTCGCCC---GAT--TACAGAGT-------------ATGTTATTCTTAATGTTAACTTAACAGTCGTTTATCGGTCGTAAGGTGACCATATACTCA-----------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEug1
AT---CTAGAATG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droSim2
TT---TT---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SizeHit 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
No Reads
droSec2
GT---TAAGCACACGCCACCGAATGCCGCG--------------------------TCTCGCGTATATTCCTCTTTACTTATGCT------CTCTGAAGTGTGTATGCGTTTGTGAG---------TGAGCTAGGTATAC--------------------------------------------------------SizeHit CountTotal NormTotalM054
Female-body		V113
Male-body		V114
Embryo		V115
Head
...............................................................................TATGCT------CTCTGAAGTGTGTATGCGTT.....................................................................................26160.3863120
.................................................................................TGCT------CTCTGAAGTGTGTATGCGTT.....................................................................................24160.1320020
..............................................................................TTATGCT------CTCTGAAGTGTGTATGCGTT.....................................................................................27160.1321010
..............................................................................TTATGCT------CTCTGAAGTGTGTATGCGT......................................................................................26160.1320020
.........................................................................................................TGCGTTTGTGAG---------TGAGCTAGG.............................................................21100.1011000
.........................................................................................................TGCGTTTGTGAG---------TGAGCTAGGTA...........................................................23100.1011000
.......................................................................................................TATGCGTTTGTGAG---------TGAGCTAGGTA...........................................................25100.1011000
.....TAAGCACACGCCACCGAATGCCGCG--------------------------TC..........................................................................................................................................27150.0710010
.................................................................................TGCT------CTCTGAAGTGTGTATGCGT......................................................................................23160.0610010
.................................................................................TGCT------CTCTGAAGTGTGTATGCGTTT....................................................................................25160.0610010
.............................................................................CTTATGCT------CTCTGAAGTGTGTATGCGTT.....................................................................................28160.0611000
...............................................................................TATGCT------CTCTGAAGTGTGTATGC........................................................................................23180.0610010
.................................................................................TGCT------CTCTGAAGTGTGTATGC........................................................................................21180.0610010
.............................................................................CTTATGCT------CTCTGAAGTGTGT............................................................................................21200.0511000

Generated: 05/15/2015 at 03:12 PM