ID:

dan_1044

 Coordinate:

scaffold_12948:438841-438991 +

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-22.5 -22.5 -22.3

Flybase annnotation

exon [dana_GLEANR_5104:1]; CDS [Dana\GF21594-cds]; intron [Dana\GF21594-in]

Repeatable elements

NameClassFamilyStrand
(CGGGGG)nSimple_repeatSimple_repeat+

Sense Strand Reads

##################################################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CGACCCGCATAGTATTACCGGCCTGGTATCAGTTCCGGAGCTGCGCAAGAGTGAGTCGCCTCTAAATTGCACAAAATGGTCTTGGGAACTGGTCTGGTGGCAAAAGTGCAAGTGGCAAGCAGGGTGTTGGGCCTGGGCGTGGGCGTGGGCGGGGGCGGGGGCGGGTGTGTCATTGGCAGACTGAAGCAGACTCGAAATAACAATAGCACCACTTCCCACAGCTTTTGATACTTTCTTGAAGGCGGAAGAGT
************************************************************************....((.(((((....((.((((....((....((.((...(((.((((...))))..))))).))....))..)))).))..))))).))**************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total V039
embryo
 V055
head
 V105
male body		 V106
head
 M058
embryo
 M044
female body
...........................................................................................................................................................................................................................AGTTTTTGATACTTTCTTGA............ 20 1 1 2.00 2 2 0 0 0 0 0
............................................................................................................................................................................................................................GTTTTTGATACTTTCTTGA............ 19 1 2 2.00 4 4 0 0 0 0 0
........................................................................AAAATGGTCTTGGGAACTGGTCT............................................................................................................................................................ 23 0 1 1.00 1 0 0 0 0 1 0
..................................CCGGAGCTGCGCAAGAGTG...................................................................................................................................................................................................... 19 0 1 1.00 1 0 0 1 0 0 0
................................................................................................................................................GTGGGCGGGGGCGGGGGCG........................................................................................ 19 0 1 1.00 1 0 0 0 1 0 0
............................................................................................................................................................................................................................GCTTTTGATACTTTCTTCA............ 19 1 1 1.00 1 1 0 0 0 0 0
............................................................................................................................................................................................................................GTTTTTGATACTTTCTTGAA........... 20 1 1 1.00 1 1 0 0 0 0 0
............................................................................................................................................................................................................................GCTTTTGATACTTTCGTGA............ 19 1 1 1.00 1 1 0 0 0 0 0
.....................................................................................................................................................CGGGGGCGGGGGTAGGTGTGT................................................................................. 21 2 2 0.50 1 0 1 0 0 0 0
...........................................................................................................................................................................ATTGGTGGACTGAAGCAGA............................................................. 19 2 3 0.33 1 0 1 0 0 0 0
............................................................................................................................................................................................................................GCTTTCGATACTTTCTGGA............ 19 2 3 0.33 1 1 0 0 0 0 0
...............................................................................................................................................................GGCCGGGGTGGCATTGGCAGAC...................................................................... 22 3 3 0.33 1 0 1 0 0 0 0
.....................................................................................................................................................GAGGGGCGGGGGCGGGTGTG.................................................................................. 20 2 5 0.20 1 0 1 0 0 0 0
............................................................................................................................................................................................................................GTTTTTGATACTTTCTCGA............ 19 2 10 0.10 1 1 0 0 0 0 0
............................................................................................................................................................................TTGGAAGACTGAAGCGGA............................................................. 18 2 10 0.10 1 0 1 0 0 0 0
................................................................................................................................................................GCGGGTGTGGAATTGGTAGAC...................................................................... 21 3 10 0.10 1 0 0 1 0 0 0
............................................................................................................................................................................................................................GTTTTTGATACTTTCTAGA............ 19 2 11 0.09 1 1 0 0 0 0 0
................................................................................................................................................................................................CGACAGAACAATAGCACTAC....................................... 20 3 11 0.09 1 1 0 0 0 0 0
.......................................................................................................................................................GGCGCGGCGGCGGGTGTG.................................................................................. 18 2 11 0.09 1 0 0 0 0 0 1
...........................................................................................................................................................................................................................AGGTTTTGATACTTTCCCGA............ 20 3 11 0.09 1 0 1 0 0 0 0
........ATAGTATTACCGGAACGGT................................................................................................................................................................................................................................ 19 3 13 0.08 1 0 1 0 0 0 0
............................................................................................................................................................................................................................GTTTTTAATACTTTCTTGA............ 19 2 16 0.06 1 1 0 0 0 0 0
................................................................................................................................GTGCCTGGGCGTTCGCGTG........................................................................................................ 19 3 20 0.05 1 0 0 0 1 0 0
................................................................................................................................................GTGGGCGGGGGGAGGGGCG........................................................................................ 19 2 20 0.05 1 0 0 0 1 0 0
...............................................................................................................................TGGGGCCGGGCGCGGGCGTG........................................................................................................ 20 3 20 0.05 1 0 0 0 0 0 1

Anti-sense strand reads

GCTGGGCGTATCATAATGGCCGGACCATAGTCAAGGCCTCGACGCGTTCTCACTCAGCGGAGATTTAACGTGTTTTACCAGAACCCTTGACCAGACCACCGTTTTCACGTTCACCGTTCGTCCCACAACCCGGACCCGCACCCGCACCCGCCCCCGCCCCCGCCCACACAGTAACCGTCTGACTTCGTCTGAGCTTTATTGTTATCGTGGTGAAGGGTGTCGAAAACTATGAAAGAACTTCCGCCTTCTCA
****************************************************************************************....((.(((((....((.((((....((....((.((...(((.((((...))))..))))).))....))..)))).))..))))).))************************************************************************ 		Read size # Mismatch Hit Count Total Norm Total V055
head
 M058
embryo
 V105
male body		 V039
embryo
.....................................................................................................................................................................ACACAGTAACCGTCTGACTTC................................................................. 21 0 1 1.00 1 0 1 0 0
.............................................................................................................................................................................ACCGTCTTAGTTCGTCTGA........................................................... 19 2 1 1.00 1 1 0 0 0
.......................................................................................................................................................................................................TGATATGGTGGAGAAGGGTGT............................... 21 3 2 0.50 1 1 0 0 0
..........................................................................................................................CCACAGCGCGAACCCGCACCCG........................................................................................................... 22 3 2 0.50 1 0 1 0 0
.........................................................................................................................................................CCGCCCCCCCCCACACA................................................................................. 17 1 5 0.20 1 1 0 0 0
.....................................................................................................................................................................................................................AGGGTGTCCGATACTATGA................... 19 3 6 0.17 1 0 0 1 0
..................................................................................................................................................................................................................TGCAGGGTGTCGACAACT....................... 18 2 6 0.17 1 1 0 0 0
.............................................................................................................................................................................GCCGTCCGAGTTCGTCTGA........................................................... 19 3 12 0.08 1 0 0 0 1
...........................................................................................................................................................................TAACCGTCATACTTCGTGT............................................................. 19 3 20 0.05 1 0 0 0 1

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_12948:438791-439041 + dan_1044 CGACCCGCATAGTATTACCGGCCTGGTATCAGTTCCGGAGCTGCGCAAGAGTGAGTCGCCTCTAAATTGCACAAAATGGTCTTGGGAACTGGTCTGGTGGCAAAAGTGCAAGTGGCAAGCAGGGTGTTGGGCCTGGGCGTGGGCGTGGGCGGGGGCGGGGGCGGGTGTGTCATTGGCAGACTGAAGCAGACTCGAAATAACAATAGCACCACTTCCCACAGCTTTTGATACTTTCTTGAAGGCGGAAGAGT
droBip1 scf7180000395902:38113-38164 - GGA------------------------------------------------------------------------------------------------------------------------------------------------------------GGTGGGCCTGGCATTGACTGACTAAAGAAGACTTAACATAACAAAAACA-------------------------------------------
droFic1 scf7180000453906:839118-839166 + TGG-------------------------------------------------------------------------------------------------------------------GCGTGGGCGTCGGCGTCGGAGTGGGCGTGGGCAGCGGCACGGGCAG---------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CGACCCGCATAGTATTACCGGCCTGGTATCAGTTCCGGAGCTGCGCAAGAGTGAGTCGCCTCTAAATTGCACAAAATGGTCTTGGGAACTGGTCTGGTGGCAAAAGTGCAAGTGGCAAGCAGGGTGTTGGGCCTGGGCGTGGGCGTGGGCGGGGGCGGGGGCGGGTGTGTCATTGGCAGACTGAAGCAGACTCGAAATAACAATAGCACCACTTCCCACAGCTTTTGATACTTTCTTGAAGGCGGAAGAGTSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
........................................................................AAAATGGTCTTGGGAACTGGTCT............................................................................................................................................................2311.001010000
..................................CCGGAGCTGCGCAAGAGTG......................................................................................................................................................................................................1911.001000010
................................................................................................................................................GTGGGCGGGGGCGGGGGCG........................................................................................1911.001000001
droBip1
GGA------------------------------------------------------------------------------------------------------------------------------------------------------------GGTGGGCCTGGCATTGACTGACTAAAGAAGACTTAACATAACAAAAACA-------------------------------------------SizeHit CountTotal NormTotal
No Reads
droFic1
TGG-------------------------------------------------------------------------------------------------------------------GCGTGGGCGTCGGCGTCGGAGTGGGCGTGGGCAGCGGCACGGGCAG---------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads

Generated: 05/18/2015 at 12:03 AM