ID:

dan_226

Coordinate:

scaffold_13335:211582-211645 +

Confidence:

confident

Class:

Testes-restricted

Genomic Locale:

intergenic

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-34.6	-34.4	-34.1

Flybase annnotation

intergenic

No Repeatable elements found

Sense Strand Reads

ATTTTCGTCCTCAGATATGTAAAATTGTAAATCCTTTTTAAAGTTGTGAAAATTGGAGCATCGAATTAGCTAATCCGTATTTCTTATCGAATTGGCAAATTTGATGTCCAATTTTTATAACATTATTCATCTTAAGATTCGTGAGTGCTCTTATTTTAAACCTT ************************************....(((((((((((((((.(((((((((.((((((.((((.....)).)).)))))).))))))))))))))))))))))))....*************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V105 male body	V055 head	V106 head	M058 embryo
.........................................................................................AATTGGCAAATTTGATGTCCA......................................................	21	0	1	16.00	16	5	7	4	0
.........................................................................................AATTGGCAAATTTGATGTCC.......................................................	20	0	1	10.00	10	6	1	1	2
.........................................................................................AATTGGCAAATTTGATGTCCAA.....................................................	22	0	1	7.00	7	2	3	2	0
.........................................................................................AATTGGCAAATTTGATGTC........................................................	19	0	1	3.00	3	2	0	1	0
.....................................................TGGAGCATCGAATTAGCTAATC.........................................................................................	22	0	1	2.00	2	1	0	1	0
.........................................................................................AATTGGCAGATTTGATGTCCA......................................................	21	1	1	1.00	1	0	1	0	0
......................................................GGAGCATCGAATCAGCTAATCCG.......................................................................................	23	1	1	1.00	1	1	0	0	0
......................................................GGAGCATCGAATTAGCTAATCCG.......................................................................................	23	0	1	1.00	1	1	0	0	0
.........................................................................................AATTGGCAGAGTTGATGTCCA......................................................	21	2	1	1.00	1	1	0	0	0
......................................................GGAGCATCGAATTAGCTAATC.........................................................................................	21	0	1	1.00	1	1	0	0	0
.....................................................TGGAGCATCGAATTAGCTAATCC........................................................................................	23	0	1	1.00	1	1	0	0	0
.........................................................................................AATTGTCAAATTTGATGTC........................................................	19	1	1	1.00	1	0	0	1	0
.........................................................................................AATTGGTAAACTTGATGTC........................................................	19	2	4	0.50	2	2	0	0	0

Anti-sense strand reads

TAAAAGCAGGAGTCTATACATTTTAACATTTAGGAAAAATTTCAACACTTTTAACCTCGTAGCTTAATCGATTAGGCATAAAGAATAGCTTAACCGTTTAAACTACAGGTTAAAAATATTGTAATAAGTAGAATTCTAAGCACTCACGAGAATAAAATTTGGAA *************************************....(((((((((((((((.(((((((((.((((((.((((.....)).)).)))))).))))))))))))))))))))))))....************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V039 embryo	V055 head
.............................................................................................................................ACGTAGAATTCTATGCACTCG..................	21	3	3	0.33	1	1	0
......................TGATCATTTAGGAGAAATTT..........................................................................................................................	20	3	20	0.05	1	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Type	Alignment
droAna3	scaffold_13335:211532-211695 +	dan_226	confident	ATTT-------TCGTCCTCAGATATGTAAAATTGTAAATC---------------------CTTTTTAAAGTTGTGAAA---ATTGGAGCATCGAATTAGCTAATCCGTATTTCTTATCGAATTGGCAAATTTGATGTCCAATTTTTATAACATTATTCATCTTAAGATTCGTGAGTGCTCTTATTTTAAACCTT
droBip1	scf7180000396778:4740-4871 -			TCCGTTGGGACTGATCCTGAAATGTCTGAAATTGTAAATATTGGTTTCCGACCATTTGTACCTTTTTGCAGTG---AAAACAAT------------------------TATTTTTGAT--------------------TAATTTTTTGTTATTTTATTTATTT---------------ATTTTA-TTCAAAACTT
droRho1	scf7180000779514:101383-101412 +			AGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAAAGGCACTTGTATTTTAAACCTT
droBia1	scf7180000302262:6636-6652 -			CTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACATTTTAATTGCT
droEre2	scaffold_4929:7279360-7279443 +			CAT----------------------------------------------------------------------------------------------------------ATTTTTTATCGAATCAGACACTTCAATATTTTGCTTTAATTAATTTGTTCTTTTTAAGGAGTATGA-----TTTATTATATATCTT

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

ATTT-------TCGTCCTCAGATATGTAAAATTGTAAATC---------------------CTTTTTAAAGTTGTGAAA---ATTGGAGCATCGAATTAGCTAATCCGTATTTCTTATCGAATTGGCAAATTTGATGTCCAATTTTTATAACATTATTCATCTTAAGATTCGTGAGTGCTCTTATTTTAAACCTT	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
........................................................................................................................AATTGGCAAATTTGATGTCCA......................................................	21	1	16.00	16	0	0	0	7	5	4
........................................................................................................................AATTGGCAAATTTGATGTCC.......................................................	20	1	10.00	10	0	2	0	1	6	1
........................................................................................................................AATTGGCAAATTTGATGTCCAA.....................................................	22	1	7.00	7	0	0	0	3	2	2
........................................................................................................................AATTGGCAAATTTGATGTC........................................................	19	1	3.00	3	0	0	0	0	2	1
....................................................................................TGGAGCATCGAATTAGCTAATC.........................................................................................	22	1	2.00	2	0	0	0	0	1	1
.....................................................................................GGAGCATCGAATTAGCTAATCCG.......................................................................................	23	1	1.00	1	0	0	0	0	1	0
.....................................................................................GGAGCATCGAATTAGCTAATC.........................................................................................	21	1	1.00	1	0	0	0	0	1	0
....................................................................................TGGAGCATCGAATTAGCTAATCC........................................................................................	23	1	1.00	1	0	0	0	0	1	0

droBip1

TCCGTTGGGACTGATCCTGAAATGTCTGAAATTGTAAATATTGGTTTCCGACCATTTGTACCTTTTTGCAGTG---AAAACAAT------------------------TATTTTTGAT--------------------TAATTTTTTGTTATTTTATTTATTT---------------ATTTTA-TTCAAAACTT	Size	Hit Count	Total Norm	Total
No Reads

droRho1

AGA---------------------------------------------------------------------------------------------------------------------------------------------------------------------TTTAAAGGCACTTGTATTTTAAACCTT	Size	Hit Count	Total Norm	Total
No Reads

droBia1

CTT----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ACATTTTAATTGCT	Size	Hit Count	Total Norm	Total
No Reads

droEre2

CAT----------------------------------------------------------------------------------------------------------ATTTTTTATCGAATCAGACACTTCAATATTTTGCTTTAATTAATTTGTTCTTTTTAAGGAGTATGA-----TTTATTATATATCTT	Size	Hit Count	Total Norm	Total	M055 Female-body	M057 Embryo	V060 Head	V040 Embryo	V107 Male-body	V108 Head	GSM1528801 follicle cells
No Reads

Generated: 10/20/2015 at 06:51 PM