ID:

dwi_1659

Coordinate:

scf2_1100000004585:2955961-2956111 +

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 [Dwil\GK24650-cds]; exon [dwil_GLEANR_8784:1]; intron [Dwil\GK24650-in]

Repeatable elements

Name	Class	Family	Strand
(TG)n	Simple_repeat	Simple_repeat	+

Sense Strand Reads

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- GGGAGCGAGAAGAAGGCGAAACGAAGGCGGAGGAGTAGGAGTAGGAGGAGGTATGTTCGAATGCATTTAGACTACGGACTTGCTATAATAATTGTCTCAATTATTGGTTTTTTACACCGTGTGTGTGCGAGTGTGTGTGTGTGTGTGGGTCAATCATAAATATTTCATGAACAATTGCTGCTAACCTAGTGGTGCTGCTCCTGCGTGCTGTGGTGTGCTCCACGAATTTCCACCCACAACTATTCAACATT ************************************************.((((.....((.(((.((.((((((.((((((..(((((((((...)))))))))......(((((...))))).)))))).)))).)).)).))).))....))))..................((.((..(((....))))).))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V118 embryo	M045 female body	V117 male body
........................................................................................................TGTTTTTTTACGCCGTGTCTGT.............................................................................................................................	22	3	2	0.50	1	1	0	0
................................................................ATTTGGACTACGGGGTTGC........................................................................................................................................................................	19	3	10	0.20	2	0	2	0
...............................GGAGTAGGAGTAGGAGGA..........................................................................................................................................................................................................	18	0	12	0.08	1	1	0	0
..................................................................................................................................................................................................CTGCTCCAACGTGCTGGGG......................................	19	3	12	0.08	1	0	1	0
...........................................................................................................................................................................................GGTGGAGCTGCCCCTGCGT.............................................	19	3	20	0.05	1	0	0	1
..........................GTGGAGGGGTAGGAGTAG...............................................................................................................................................................................................................	18	2	20	0.05	1	0	1	0

Anti-sense strand reads

CCCTCGCTCTTCTTCCGCTTTGCTTCCGCCTCCTCATCCTCATCCTCCTCCATACAAGCTTACGTAAATCTGATGCCTGAACGATATTATTAACAGAGTTAATAACCAAAAAATGTGGCACACACACGCTCACACACACACACACACCCAGTTAGTATTTATAAAGTACTTGTTAACGACGATTGGATCACCACGACGAGGACGCACGACACCACACGAGGTGCTTAAAGGTGGGTGTTGATAAGTTGTAA ************************************************.((((.....((.(((.((.((((((.((((((..(((((((((...)))))))))......(((((...))))).)))))).)))).)).)).))).))....))))..................((.((..(((....))))).))...************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V118 embryo	V117 male body	M045 female body
..................................................................................................................................................................................................................ACCACCCGAGGTGTTTAAA......................	19	2	2	0.50	1	1	0	0
..................................................................................................................................................................................................................ACCACCCGAGGTGTTTAAAG.....................	20	2	2	0.50	1	1	0	0
..................................................................................................................................................................................................................ACCACAAGAGGTGTTTAAAG.....................	20	2	2	0.50	1	1	0	0
.......................................................................................................................................................................................TGGATCACCAGCACGAGTAC................................................	20	3	4	0.25	1	0	1	0
.................................................................................................................................................................................................................CCCCCCACGAGGTGTTTAAA......................	20	3	8	0.13	1	1	0	0
.......................................................................................................................................................................................TGGATCACCAGCACGAGTA.................................................	19	3	9	0.11	1	0	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droWil2	scf2_1100000004585:2955911-2956161 +	dwi_1659	GGGAGCGAGAAGAA-GGCGAAACGAAGGCGGAGGAGTAGGAGTAGGAGGAGGTATGTTCGAATGCATTTAGACTACGGACTTGCT---------------ATAATAATTGTCTCAATTATTGGTTTTTTACACC-GTGTGTGTGCGAGTGTGTGTGTGTGTGTGGGTCAATCATAAATATTTCATGAACAATTGCTGCTAACCTAGTGGTGCTGCTCCTGCGTGCTGTGGTGTGCTCCACGAATTTCCACCCACAACTATTCAACATT
droTak1	scf7180000413017:40612-40745 +		GAGTGGGCGTGGAAAAGGGGTTCGA------------------------------------TTGTTGTTG----------TTGTTATTGTTGTTGTTCCTACCATTGCTCTTTGCATTGTCCATCCCTTCT----------GTGCGTGTGTGTGTGTGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------
droEug1	scf7180000409554:1195390-1195440 -		GTG---------------------------------------------------------------------------------------------------------------------------------------AGT----GCGTGCGTGTGTGTGCCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------
droSim2	2l:437950-438044 -		--------------------------------------------------------------------------------TTGCT---------------ACCATTGCTCTTTGCATTGTCCATCCCTTCTGCCGGCGAGTGCGTGCGTCTGTGTGAGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------
droSec2	scaffold_14:449049-449173 -		GAGTGGGCGTGGAA-AGGGGTTCGA------------------------------------TTGTGG-------------TTGCT---------------ACCATTGCTCTTTGCATTGTCCATCCCTTCTGCCGGCGAGTGCGTGCGTCTGTGTTAGTGGTGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------
droEre2	scaffold_4929:517828-517878 -		G-------------------------------------------------------------------------------------------------------------------------------------------TGCGTGCGTGTGTGTGAGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droWil2

GGGAGCGAGAAGAA-GGCGAAACGAAGGCGGAGGAGTAGGAGTAGGAGGAGGTATGTTCGAATGCATTTAGACTACGGACTTGCT---------------ATAATAATTGTCTCAATTATTGGTTTTTTACACC-GTGTGTGTGCGAGTGTGTGTGTGTGTGTGGGTCAATCATAAATATTTCATGAACAATTGCTGCTAACCTAGTGGTGCTGCTCCTGCGTGCTGTGGTGTGCTCCACGAATTTCCACCCACAACTATTCAACATT	Size	Hit Count	Total Norm	Total	M020 Head	M045 Female-body	V117 Male-body	V118 Embryo	V119 Head
................................GGAGTAGGAGTAGGAGGA..........................................................................................................................................................................................................................	18	12	0.08	1	0	0	0	1	0

droTak1

GAGTGGGCGTGGAAAAGGGGTTCGA------------------------------------TTGTTGTTG----------TTGTTATTGTTGTTGTTCCTACCATTGCTCTTTGCATTGTCCATCCCTTCT----------GTGCGTGTGTGTGTGTGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

GTG---------------------------------------------------------------------------------------------------------------------------------------AGT----GCGTGCGTGTGTGTGCCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droSim2

--------------------------------------------------------------------------------TTGCT---------------ACCATTGCTCTTTGCATTGTCCATCCCTTCTGCCGGCGAGTGCGTGCGTCTGTGTGAGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M023 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
............................................................................................................................CCCTTCTGCCGGCGA.................................................................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
............................................................................................................................CCCTTCTGCCGGCGATG...............................................................................................................................	17	20	0.05	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0

droSec2

GAGTGGGCGTGGAA-AGGGGTTCGA------------------------------------TTGTGG-------------TTGCT---------------ACCATTGCTCTTTGCATTGTCCATCCCTTCTGCCGGCGAGTGCGTGCGTCTGTGTTAGTGGTGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M054 Female-body	V113 Male-body	V114 Embryo	V115 Head
No Reads

droEre2

G-------------------------------------------------------------------------------------------------------------------------------------------TGCGTGCGTGTGTGTGAGTGGCGGGGTCAATCATTAATATTTCATGAACA------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
G-------------------------------------------------------------------------------------------------------------------------------------------TGCGTGCGTGTGTGTGAG..............................................................................................................	19	8	0.13	1	0	0	0	1	0	0	0

Generated: 05/18/2015 at 02:08 AM