ID:

dpe_403

 Coordinate:

scaffold_0:6104395-6104521 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-9.7 -9.3 -9.3

Flybase annnotation

exon [dper_GLEANR_5726:1]; exon [dper_GLEANR_5726:2]; CDS [Dper\GL23387-cds]; CDS [Dper\GL23387-cds]; intron [Dper\GL23387-in]

No Repeatable elements found

mature
  1. dpe_403  scaffold_0:6104486-6104503 -
  2. scaffold_2:4948112-4948129 -
star
  1. dpe_403  scaffold_0:6104396-6104422 -
  2. dpe_1068  scaffold_2:4948022-4948048 -

Sense Strand Reads

##################################################-------------------------------------------------------------------------------------------------------------------------------##################################################
AGGCAGCTGTTGGAGCTGTGTCCCACGAGGGGGACGTTTGGTGCCCGAAGGTGGGAGGTAATTGTATATACAATCGGATTCGTACCTATAGCAAAACCCCGAAACAAAGAGAACGGGTAAGTTCTAACTGTGACAACAAAATAGTACAAATAATTAATGCAAATTTTCACCAAGCAGGATACCTAGAAGAAGCGAAGCAAGCGTGAGGAAGCAAAACGTTCCTCTGC
********************************************************************.....((((.....................)))).......(((((......))))).(((((.........)))))...............................*************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 M021
embryo
 V057
head
 V050
head
............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAG................ 23 0 2 2.00 4 3 1 0 0 0
....................................................................TACAATCGGATTCGTACC............................................................................................................................................. 18 0 2 1.00 2 0 0 2 0 0
.........TTGGAGCTGTGTCCCACGAGGGGGA................................................................................................................................................................................................. 25 0 1 1.00 1 1 0 0 0 0
....................................................................................................................................................................TTTCACCAAGCAGGATACCTAG......................................... 22 0 1 1.00 1 1 0 0 0 0
............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCA.............. 25 0 2 1.00 2 2 0 0 0 0
.........TTGGAGCTGTGTCCCACGAGGGGGT................................................................................................................................................................................................. 25 1 1 1.00 1 0 1 0 0 0
.........TTGGAGCTGTGTCCCACGAGGGGG.................................................................................................................................................................................................. 24 0 1 1.00 1 0 0 1 0 0
...............................................................GTATATACAATCGGATTCGTAC.............................................................................................................................................. 22 0 2 1.00 2 0 0 2 0 0
..........TGGAGCTGTGTCCCACGAGGGGGA................................................................................................................................................................................................. 24 0 1 1.00 1 0 1 0 0 0
..........................................................................................................................................................TAATGCAAATTTTCACCAAGCAGGAT............................................... 26 0 2 1.00 2 2 0 0 0 0
..........................................................................................................................................................TAATGCAAATTTTCACCAAGCAGGATA.............................................. 27 0 1 1.00 1 1 0 0 0 0
...................................................................................................................................................................................TACCTAGAAGAAGCGAAGCAAGCGTGA..................... 27 0 1 1.00 1 1 0 0 0 0
.............................................................................................................AGGACGGATAACTTCTAACTG................................................................................................. 21 3 1 1.00 1 0 0 0 1 0
......................................TGGTGCCCGAAGGTGGGAGGTAATTG................................................................................................................................................................... 26 0 1 1.00 1 0 1 0 0 0
...........................................................................................................................................................................................AGAAGCGAAGCAAGCGTGAGGAAGCA.............. 26 0 2 0.50 1 1 0 0 0 0
...............................................................................................................................................................................................GCGAAGCAAGCGTGAGGAAGC............... 21 0 2 0.50 1 1 0 0 0 0
............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCAA............. 26 0 2 0.50 1 1 0 0 0 0
.....................................................................................................................................................ATAATTAATGCAAATTTTCACCAAGCA................................................... 27 0 2 0.50 1 1 0 0 0 0
.............................................................................................................................................................TGCAAATTTTCACCAAGCAG.................................................. 20 0 2 0.50 1 1 0 0 0 0
..........................................................................................................................................................TAATGCAATTTTTCACCAAGCAGGAT............................................... 26 1 2 0.50 1 1 0 0 0 0
.............................................................................................................................................................................................AAGCGAAGCAAGCGTGAGGAAGT............... 23 1 2 0.50 1 1 0 0 0 0
.............................................................................................................................................................................................AAGCGAAGCAAGCGTGAGGAAGC............... 23 0 2 0.50 1 1 0 0 0 0
..............................................................TGTATATACAATCGGATTCGTAC.............................................................................................................................................. 23 0 2 0.50 1 1 0 0 0 0
............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCAAA............ 27 0 2 0.50 1 1 0 0 0 0
...............................................AAGGTGGGAGTTAATTAT.................................................................................................................................................................. 18 2 10 0.10 1 0 0 0 0 1

Anti-sense strand reads

TCCGTCGACAACCTCGACACAGGGTGCTCCCCCTGCAAACCACGGGCTTCCACCCTCCATTAACATATATGTTAGCCTAAGCATGGATATCGTTTTGGGGCTTTGTTTCTCTTGCCCATTCAAGATTGACACTGTTGTTTTATCATGTTTATTAATTACGTTTAAAAGTGGTTCGTCCTATGGATCTTCTTCGCTTCGTTCGCACTCCTTCGTTTTGCAAGGAGACG
***************************************************.....((((.....................)))).......(((((......))))).(((((.........)))))...............................******************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M042
female body
 V111
male body		 V057
head
....................................................................................................................................................TTATTAATTACGTTTAAAAGTGGTTC..................................................... 26 0 2 3.50 7 7 0 0
..............................................................................................................CTTGCCCATTCAAGATTGACACTGT............................................................................................ 25 0 1 3.00 3 3 0 0
...................................................ACCCTCCATTAACATATATGTTAGCCT..................................................................................................................................................... 27 0 1 3.00 3 3 0 0
.................................................CCACCCTCCATTAACATATATGTTAGCCT..................................................................................................................................................... 29 0 1 2.00 2 2 0 0
..................................................CACCCTCCATTAACATATATGTTAGCCT..................................................................................................................................................... 28 0 1 2.00 2 2 0 0
.....................................................................................................................................................................................GGATCTTCTTCGCTTCGTTCGCACT..................... 25 0 1 2.00 2 2 0 0
.....................................................................................GATATCGTTTTGGGGCTTTGT......................................................................................................................... 21 0 1 1.00 1 0 1 0
......................................................................................................................................................................................GATCTTCTTCGCTTCGTTCGCACT..................... 24 0 1 1.00 1 1 0 0
.....................................................................................................................................................................................GGATCTTCTTCGCTTCGTTCGCACTCCT.................. 28 0 1 1.00 1 1 0 0
...................................................ACCCTCCATTAACATATATGTTAGCC...................................................................................................................................................... 26 0 1 1.00 1 1 0 0
.................................................................................CATGGATATCGTTTTGGGGCTTTGT......................................................................................................................... 25 0 1 1.00 1 0 1 0
..................................................................................................................CCCATTCAAGATTGACACTGTTGTTTTAT.................................................................................... 29 0 1 1.00 1 1 0 0
....................................................................................................................................................TTATTAATTACGTTTAAAAGTGGTT...................................................... 25 0 2 1.00 2 2 0 0
...............................................TTCCACCCTCCATTAACATATATGTT.......................................................................................................................................................... 26 0 1 1.00 1 1 0 0
.................................................................................................................GCCCATTCAAGATTGAGACTGTTGT......................................................................................... 25 1 1 1.00 1 1 0 0
.....CGACAACCTCGACACAGGGTGCTCCCCC.................................................................................................................................................................................................. 28 0 1 1.00 1 1 0 0
.........................................................................................................................................................................................CTTCTTCGCTTCGTTCGCACTCCTT................. 25 0 1 1.00 1 1 0 0
......................................................................................................................................................ATTAATTACGTTTAAAAGTGGTTC..................................................... 24 0 2 1.00 2 2 0 0
..............................................................................AAGCATGGATATGGGTTT................................................................................................................................... 18 2 2 1.00 2 0 0 2
..............................................................................................................CTTGCCCATTCAAGATAGACACTGT............................................................................................ 25 1 1 1.00 1 1 0 0
....................................................................................................................................................................................TGGATCTTCTTCGCTTCGTTCGCACT..................... 26 0 1 1.00 1 1 0 0
....................................................CCCTCCATTAACATATATGTTAGCCT..................................................................................................................................................... 26 0 1 1.00 1 1 0 0
........................................................................................................................................................TAATTACGTTTAAAAGTGGTTC..................................................... 22 0 2 1.00 2 2 0 0
...................................................................................................................CCATTCAAGATTGACACTGTTGTTTTAT.................................................................................... 28 0 1 1.00 1 1 0 0
..............................................................................................................................................................................................TCGCTTCGTTCGCACTCCTTCGT.............. 23 0 2 0.50 1 1 0 0
..................................................................................................................................................GTTTATTAATTACGTTTAAAAGTGGTTC..................................................... 28 0 2 0.50 1 0 1 0
............................................................................................................................................................................................CTTCTCTTCGTTCGCACTCCTTCGT.............. 25 1 2 0.50 1 1 0 0
............................................................................................................................................................................................CTTCGCTTCGTTCGCACTCCTTCGT.............. 25 0 2 0.50 1 1 0 0
..................................................................................................................................................GTTTATTAATTACGTTTAAAAGTGGTT...................................................... 27 0 2 0.50 1 1 0 0
.....................................................................................................................................................TATTAATTACGTTTAAAAGTGGTT...................................................... 24 0 2 0.50 1 1 0 0
........................................................................................................................................................................................TCATCTTCGCTTCGTTCGCACTCCTTCGT.............. 29 1 2 0.50 1 1 0 0
...........................................................................................................................................................................................TCTTCGCTTCGTTCGCACTCCTT................. 23 0 3 0.33 1 1 0 0
..............................................................................AAGCGTGGATATGGTTTT................................................................................................................................... 18 2 5 0.20 1 0 0 1
......................................ACCACGAACTTCCACCCT........................................................................................................................................................................... 18 2 8 0.13 1 0 0 1
.............................................................................AAAGCGTGGATATGGTTTT................................................................................................................................... 19 3 20 0.05 1 0 1 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droPer2 scaffold_0:6104345-6104571 - dpe_403 AGGCAGCTGTTGGAGCTGTGTCC-CACGAGGGGGACGTTTGGTGCCCGAAGGTGGGAGGTAATTGTATATACAATCGGATTCGTACCTATAGCAAAACCCCGAAACAAAGAGAACGGGTAAGTTCTAACTGTGACAACAAAATAGTACAAATAATTAATGCAAATTTTCACCAAGCAGGATACCTAGAAGAAGCGAAGCAAGCGTGAGGAAGCAAAACGTTCCTCTGC
dp5 2:14327467-14327694 + AGGCAGCTGTTGGAGCTGTGTCCCCACGAGGGGGACGTTTGGTGCCCGAAGGTGGGAGGTAATTGTATATACAATCGGATTCGTACCTAAAGCAAAACCCCGGAACAAAGAGAACGGGTAAGTTCTAACTGTAACAACAAAATCGTACAAATAATTAATGCAGATTTTCACCAAGCAGGATACCTTGAAGAAGCGAAGCAAGCGTGAGGAAGCAAAACGTTCCTCTGC

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droPer2
AGGCAGCTGTTGGAGCTGTGTCC-CACGAGGGGGACGTTTGGTGCCCGAAGGTGGGAGGTAATTGTATATACAATCGGATTCGTACCTATAGCAAAACCCCGAAACAAAGAGAACGGGTAAGTTCTAACTGTGACAACAAAATAGTACAAATAATTAATGCAAATTTTCACCAAGCAGGATACCTAGAAGAAGCGAAGCAAGCGTGAGGAAGCAAAACGTTCCTCTGCSizeHit CountTotal NormTotalM021
Embryo		M042
Female-body		V042
Embryo		V050
Head		V057
Head		V111
Male-body
.............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAG................2322.004030001
.....................................................................TACAATCGGATTCGTACC.............................................................................................................................................1821.002200000
.........TTGGAGCTGTGTCC-CACGAGGGGGA.................................................................................................................................................................................................2511.001010000
.....................................................................................................................................................................TTTCACCAAGCAGGATACCTAG.........................................2211.001010000
.............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCA..............2521.002020000
.........TTGGAGCTGTGTCC-CACGAGGGGGT.................................................................................................................................................................................................2511.001000001
.........TTGGAGCTGTGTCC-CACGAGGGGG..................................................................................................................................................................................................2411.001100000
................................................................GTATATACAATCGGATTCGTAC..............................................................................................................................................2221.002200000
..........TGGAGCTGTGTCC-CACGAGGGGGA.................................................................................................................................................................................................2411.001000001
...........................................................................................................................................................TAATGCAAATTTTCACCAAGCAGGAT...............................................2621.002020000
...........................................................................................................................................................TAATGCAAATTTTCACCAAGCAGGATA..............................................2711.001010000
....................................................................................................................................................................................TACCTAGAAGAAGCGAAGCAAGCGTGA.....................2711.001010000
.......................................TGGTGCCCGAAGGTGGGAGGTAATTG...................................................................................................................................................................2611.001000001
............................................................................................................................................................................................AGAAGCGAAGCAAGCGTGAGGAAGCA..............2620.501010000
................................................................................................................................................................................................GCGAAGCAAGCGTGAGGAAGC...............2120.501010000
.............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCAA.............2620.501010000
......................................................................................................................................................ATAATTAATGCAAATTTTCACCAAGCA...................................................2720.501010000
..............................................................................................................................................................TGCAAATTTTCACCAAGCAG..................................................2020.501010000
..............................................................................................................................................................................................AAGCGAAGCAAGCGTGAGGAAGT...............2320.501010000
..............................................................................................................................................................................................AAGCGAAGCAAGCGTGAGGAAGC...............2320.501010000
...............................................................TGTATATACAATCGGATTCGTAC..............................................................................................................................................2320.501010000
.............................................................................................................................................................................................GAAGCGAAGCAAGCGTGAGGAAGCAAA............2720.501010000
dp5
AGGCAGCTGTTGGAGCTGTGTCCCCACGAGGGGGACGTTTGGTGCCCGAAGGTGGGAGGTAATTGTATATACAATCGGATTCGTACCTAAAGCAAAACCCCGGAACAAAGAGAACGGGTAAGTTCTAACTGTAACAACAAAATCGTACAAATAATTAATGCAGATTTTCACCAAGCAGGATACCTTGAAGAAGCGAAGCAAGCGTGAGGAAGCAAAACGTTCCTCTGCSizeHit 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
.....................................................................TACAATCGGATTCGTACCTAAAGC.......................................................................................................................................2413.0030000001020
....................................................................................................................................................................TTTTCACCAAGCAGGATACCTTGAAGA.....................................2712.0020000000020
....................................................................................................................................................................................TACCTTGAAGAAGCGAAGCAAGCGTGA.....................2711.0010000000010
.....................................................................TACAATCGGATTCGTACCTAAAGCA......................................................................................................................................2511.0010000000010
..............................................................................................................................................................................GCAGGATACCTTGAAGAAGCGAAG..............................2411.0010000000010
.....................................................................TACAATCGGATTCGTACCTAAAG........................................................................................................................................2311.0010000000010
................................................................................................................................................................................................GCGAAGCAAGCGTGAGGAA.................1920.5010100000000

Generated: 06/08/2015 at 02:41 PM