ID:

dan_724

 Coordinate:

scaffold_12916:14848177-14848327 -

 Confidence:

Candidate

 Type:

Unknown

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

Predicted structure

-2.5 -1.9 -1.7

Flybase annnotation

exon [dana_GLEANR_14808:2]; CDS [Dana\GF14047-cds]; intron [Dana\GF14047-in]; intron [Dana\GF14047-in]

No Repeatable elements found

mature
star
  1. scaffold_1918:1485-1506 +
  2. dan_724  scaffold_12916:14848271-14848292 -
  3. scaffold_13045:66725-66746 -
  4. scaffold_13258:1492709-1492730 +
  5. scaffold_13337:14432684-14432705 -

Sense Strand Reads

-----------------------------#####################---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
CAGTAATATTATTATTATTATTATTGCAGATTGCGGATTATTATCGCAGTGTAAAATAAAACTTACAAAAAAACAGGATATTATTCTGAGTCATATCCCCCCATATCAAAAAGCTATCTACGCCACTGCCTCTAGCGTCTGCGTAAGTCCCGTTACGTTGCTTCGTATTCTCATGCATGGGAAAAAAACTTTCTGTGTGTGGGTGCTTCGTCCAATTCCTTTCCAAAACAAAAATAGGCGTCACTTTTCTG
*************************************************************************************..................................((((...........)))).**************************************************************************************************************** 		Read size # Mismatch Hit Count Total Norm Total M044
female body
 V039
embryo
 V105
male body		 M058
embryo
..................................................................................................................TATCTACGCCACTGCCTCTAGCGTC................................................................................................................ 25 0 1 2.00 2 2 0 0 0
......................................................................................................................TACCCCACCGCCTCTAGCGTC................................................................................................................ 21 2 1 1.00 1 0 1 0 0
.........................................................................................................................................................................................AAACTTTCTGTGTGTGGGTGCTTCGTC....................................... 27 0 1 1.00 1 1 0 0 0
...................................................................................................................................................................CGTATTCTCATGCATGGAAA.................................................................... 20 1 1 1.00 1 1 0 0 0
....................................................................................................................................TAGCGTCTGCGTAAGTCCCGTTACG.............................................................................................. 25 0 1 1.00 1 0 0 1 0
................................................................................................................................................................ACTCGTATTCTCATGCATG........................................................................ 19 2 2 0.50 1 0 0 0 1
.............................................................................................TATCCCCCCATATCAAAAAGCTATCTA................................................................................................................................... 27 0 5 0.20 1 1 0 0 0
.....................................................................................CTGAGTCATATCCCCCCATATC................................................................................................................................................ 22 0 5 0.20 1 1 0 0 0
...............................................................................ATTATTCTGAGTCATATCCCCCC..................................................................................................................................................... 23 0 20 0.05 1 1 0 0 0
.........................................................................................................CCAAAAAGCTATCTACGCCACTGC.......................................................................................................................... 24 1 20 0.05 1 0 0 0 1
.................................................................................TATTCTGAGTCATATCCCCCC..................................................................................................................................................... 21 0 20 0.05 1 0 0 0 1

Anti-sense strand reads

GTCATTATAATAATAATAATAATAACGTCTAACGCCTAATAATAGCGTCACATTTTATTTTGAATGTTTTTTTGTCCTATAATAAGACTCAGTATAGGGGGGTATAGTTTTTCGATAGATGCGGTGACGGAGATCGCAGACGCATTCAGGGCAATGCAACGAAGCATAAGAGTACGTACCCTTTTTTTGAAAGACACACACCCACGAAGCAGGTTAAGGAAAGGTTTTGTTTTTATCCGCAGTGAAAAGAC
****************************************************************************************************************..................................((((...........)))).************************************************************************************* 		Read size # Mismatch Hit Count Total Norm Total V055
head
 M058
embryo
 M044
female body
 V039
embryo
.....................................................................................................................................................................................................ACACCCACGAAGCCGGATA................................... 19 2 3 0.33 1 0 1 0 0
.........................................................................................................................................................................................................CCACGAAGGCAGTTAAGGAAA............................. 21 3 3 0.33 1 1 0 0 0
..............................................................................................TAGGGGGGTATAGTTTTTCGAT....................................................................................................................................... 22 0 5 0.20 1 0 0 1 0
................................................................................................................CGATATATAGGGTGACGGAGA...................................................................................................................... 21 3 6 0.17 1 1 0 0 0
..................................................................................................................................................CAGGGCAAGGGAACGAA........................................................................................ 17 2 12 0.08 1 1 0 0 0
........................ACGTATAACGCCGAATAA................................................................................................................................................................................................................. 18 2 15 0.07 1 1 0 0 0
................................................................................................................................................TCCAGTCCAATGCAACGAA........................................................................................ 19 3 19 0.05 1 1 0 0 0
..................................................................................................GGGGTATAGTTTTTCGATAGAT................................................................................................................................... 22 0 20 0.05 1 0 0 0 1
......................................................................TTTGTCCTATAATAAGACTCAGT.............................................................................................................................................................. 23 0 20 0.05 1 0 0 1 0
...................................................................................................GGGTATAGTTTTTCGATAGATGCGG............................................................................................................................... 25 0 20 0.05 1 0 1 0 0
.................................GCCTAATAATAGCGTCACATTTTAT................................................................................................................................................................................................. 25 0 20 0.05 1 0 1 0 0
....................................................................................................GGTATAGTTTTTCGATAGAGGCGGTG............................................................................................................................. 26 1 20 0.05 1 0 1 0 0
.................................................................................................GGGGGTATAGTTTTTCGATAG..................................................................................................................................... 21 0 20 0.05 1 0 0 0 1
...................................CTAATAATAGCGTCACATTTTATTTT.............................................................................................................................................................................................. 26 0 20 0.05 1 0 0 1 0
.................................................................................................GGGGGTATAGTTTTTCGATAGGT................................................................................................................................... 23 1 20 0.05 1 0 1 0 0
...................................................................................................GGGTATAGTTTTTCGATAGAT................................................................................................................................... 21 0 20 0.05 1 0 1 0 0

Re-alignment of all predicted orthologs

Species Coordinate ID Alignment
droAna3 scaffold_12916:14848127-14848377 - dan_724 CAGTAATATTATTATTATTATTATTGCAGATTGCGGATTATTATCGCAGTGTAAAATAAAACTTACAAAAAAACAGGATATTATTCTGAGTCATATCCC----------CCCATATCAAAAAGCTATCTACGCCACTGCCTCTAGCGTCTGCGTAAGTCCCGTTACGTTGCTTCGTATTCTCATGCATGGGAAAAAAACTTTCTGTGTGTGGGTGCTTCGTCCAATTCCTTTC----CAAAACAAAAATAGGCGTCACTTTTCTG
droBip1 scf7180000396572:2151768-2151870 + ----------------------AG-------------------------------------------------------------------------------------------------------------------------CGTCTGCGTAAGTTCCGTTAG---------------AATGCAAGCGTTAAAGCCTT----TGTGTGGGTGCTTCAGACCATTCTTTATTTAAATAAACAAAAATTGGCGTCAATTTTCTA
droFic1 scf7180000453563:3418-3548 + ----------------------G------------GATTATTATCGCAGTGTAAAATATAACTTACAAAAAAACAGGATATTATTCTGAGTCATAACCCCCCCCCCCCCCCCATATCAAAAAGCTATCTACGCCACTGGCGCCAAAGCTGGGGAAAATGGCGCTA----------------------------------------------------------------------------------------------------
droEle1 scf7180000487036:4098-4208 + ----------------------ACTGTGCAACGCGGATTATTATCGCAGTGTAAAATAAAACTTACAAA-AAACAGGATATTATTCTGAGTCATATCCCC--------CCCCATATCAAAAAGCTATCTACGCCACTGTCTC---------------------------------------------------------------------------------------------------------------------------
droTak1 scf7180000415308:4735-4779 - ----------------------AT--------------------------------------------------------------------------------------------------------------------------------------------------------------------GGGAAAAAAATTATATCTTTGTTGGTTTTTATTACAATTCCTT----------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species Read alignment
droAna3
CAGTAATATTATTATTATTATTATTGCAGATTGCGGATTATTATCGCAGTGTAAAATAAAACTTACAAAAAAACAGGATATTATTCTGAGTCATATCCC----------CCCATATCAAAAAGCTATCTACGCCACTGCCTCTAGCGTCTGCGTAAGTCCCGTTACGTTGCTTCGTATTCTCATGCATGGGAAAAAAACTTTCTGTGTGTGGGTGCTTCGTCCAATTCCTTTC----CAAAACAAAAATAGGCGTCACTTTTCTGSizeHit CountTotal NormTotalM044
Female-body		M058
Embryo		V039
Embryo		V055
Head		V105
Male-body		V106
Head
............................................................................................................................TATCTACGCCACTGCCTCTAGCGTC....................................................................................................................2512.002200000
...................................................................................................................................................................................................AAACTTTCTGTGTGTGGGTGCTTCGTC...........................................2711.001100000
..............................................................................................................................................TAGCGTCTGCGTAAGTCCCGTTACG..................................................................................................2511.001000010
.............................................................................................TATCCC----------CCCATATCAAAAAGCTATCTA.......................................................................................................................................2750.201100000
.....................................................................................CTGAGTCATATCCC----------CCCATATC....................................................................................................................................................2250.201100000
...............................................................................ATTATTCTGAGTCATATCCC----------CCC.........................................................................................................................................................23200.051100000
.................................................................................TATTCTGAGTCATATCCC----------CCC.........................................................................................................................................................21200.051010000
droBip1
----------------------AG-------------------------------------------------------------------------------------------------------------------------CGTCTGCGTAAGTTCCGTTAG---------------AATGCAAGCGTTAAAGCCTT----TGTGTGGGTGCTTCAGACCATTCTTTATTTAAATAAACAAAAATTGGCGTCAATTTTCTASizeHit CountTotal NormTotal
No Reads
droFic1
----------------------G------------GATTATTATCGCAGTGTAAAATATAACTTACAAAAAAACAGGATATTATTCTGAGTCATAACCCCCCCCCCCCCCCCATATCAAAAAGCTATCTACGCCACTGGCGCCAAAGCTGGGGAAAATGGCGCTA----------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droEle1
----------------------ACTGTGCAACGCGGATTATTATCGCAGTGTAAAATAAAACTTACAAA-AAACAGGATATTATTCTGAGTCATATCCCC--------CCCCATATCAAAAAGCTATCTACGCCACTGTCTC---------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormTotal
No Reads
droTak1
----------------------AT--------------------------------------------------------------------------------------------------------------------------------------------------------------------GGGAAAAAAATTATATCTTTGTTGGTTTTTATTACAATTCCTT----------------------------------SizeHit CountTotal NormTotal
No Reads

Generated: 05/17/2015 at 11:02 PM