ID:

dpe_1078

Coordinate:

scaffold_2:5333799-5333949 -

Confidence:

Candidate

Type:

Unknown

[View on UCSC Genome Browser {Cornell Mirror}]

Legend:

mature

star

mismatch in alignment

mismatch in read

Predicted structure

-24.7	-24.5	-24.4

Flybase annnotation

exon [dper_GLEANR_10762:1]; CDS [Dper\GL10640-cds]; intron [Dper\GL10640-in]

No Repeatable elements found

Sense Strand Reads

##################################################--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CGCTCGCGTTCTCCCAAGGATGGAAGTCATTCGCATCGCAACCATGCCAGGTAAGCCATAAAAAGGAAAAAAGGTGACCCGGGGTCTTTAATAGTGCAGTTACAGGAACTACAAACACAAGCGTTCCGGATCGTCGTCATCGTCTGGCTCCTCATCGTCTGCCTCGTCCAGACACGAAAATAGCCCATCCCTCAGGTAAATACAACAAATGTAGATATCGAGTAACCGGGTATCGACATCAAGTAGGCTAT ************************************************..............(((.....((((((((((((.(((......((.((((.....)))).)).....)))..))))))......))))))....((((.......(((((.......)))))........))))..)))...........************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M021 embryo	V111 male body	V057 head	V042 embryo	M042 female body
......................................................................................................................AAGCGTTCCGGATCGTCGTC.................................................................................................................	20	0	1	2.00	2	2	0	0	0	0
.............................................................................................................................CCGGATCGTCGTCATCGTCTGGCTCCC...................................................................................................	27	1	1	1.00	1	1	0	0	0	0
..................................................................................................................................................................................................................................CGGGTATCGACATCAAGTAGGA...	22	1	1	1.00	1	0	1	0	0	0
.................GGTTGGAAATCATTCGCA........................................................................................................................................................................................................................	18	2	11	0.18	2	0	0	2	0	0
......................................................GCCATAAAAAGGAGAATTGGT................................................................................................................................................................................	21	3	15	0.07	1	0	0	1	0	0
...............ATGGTTGGAAATCATTCGC.........................................................................................................................................................................................................................	19	3	19	0.05	1	0	0	0	0	1
....................TGGAAGTCTTTCGCAGCGC....................................................................................................................................................................................................................	19	2	20	0.05	1	0	0	0	1	0
...................ATGGAAGTCTTTCGCCTAGC....................................................................................................................................................................................................................	20	3	20	0.05	1	0	0	0	1	0
...................ATGGAAGTTATTCGCATAGA....................................................................................................................................................................................................................	20	3	20	0.05	1	0	0	0	1	0

Anti-sense strand reads

GCGAGCGCAAGAGGGTTCCTACCTTCAGTAAGCGTAGCGTTGGTACGGTCCATTCGGTATTTTTCCTTTTTTCCACTGGGCCCCAGAAATTATCACGTCAATGTCCTTGATGTTTGTGTTCGCAAGGCCTAGCAGCAGTAGCAGACCGAGGAGTAGCAGACGGAGCAGGTCTGTGCTTTTATCGGGTAGGGAGTCCATTTATGTTGTTTACATCTATAGCTCATTGGCCCATAGCTGTAGTTCATCCGATA ************************************************..............(((.....((((((((((((.(((......((.((((.....)))).)).....)))..))))))......))))))....((((.......(((((.......)))))........))))..)))...........************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	V111 male body	V057 head
......................................................................................................................................GCAGTAGCAGACCGAGGAGT.................................................................................................	20	0	1	1.00	1	1	0
.............................................................................................CGCGTCAATGTGCTTGATC...........................................................................................................................................	19	3	5	0.20	1	0	1
.......................................................................................................................................................AGATGCAGACGCAGCAGGTC................................................................................	20	3	18	0.06	1	0	1

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droPer2	scaffold_2:5333749-5333999 -	dpe_1078	CGCTCGCGTTCTCCCAAGGATGGAAGTCATTCGCATCGCAACCATGCCAGGTAAGCCATA----------------------AAAAGGAAAAA-AGGTGACCCGGG--------GTCTTTAATAGTGCAGTTAC---AGGAACTACAAACACAAGCGTTCCGGATCGTCGTCATCGTCTGGCTCCTCATCGTCTGCCTCGTCCAGACACGAAAATAGCCCATCCCTCAGGTAAATACA-ACAAATGTAGATAT----C------------------------------GAGTAACCGGGTATCGACATCAAGTAGGCTA-------------------T
dp5	3:5132554-5132804 -		CGCTCGCGTTCTCCCAAGGATGGAAGTCATTCGCATCGCAACCATGCCAGGTAAGCCATA----------------------AAAAGGAAAAA-AGGTGACCCGGG--------GTCTTTAATAGTGCAGTTAC---AGGAACTACAAACACAAGCGTTCCGGATCGTCGTCATCGTCTGGCTCCTCATCGTCTGCCTCGTCCAGACACGAAAATAGCCCATCCCTCAGGTAATTACA-ACAAATTTAGATAT----C------------------------------GAGTAACCGGGTATCGACATCGAGTAGGCTA-------------------T
droFic1	scf7180000453778:756006-756259 +		TCCTCCCGTTCCTCCGAAGAGCGAAACTATTTACATCGCAAATTCGACAGGTAAGCAAAA----------------------ATAACTTAAAATACATAGAGCGCTGTGTTGAGA--------GTCTCGATTGCAGTAGTAGCTACAAGCACAAGCGGTCTGCTTCCTCCTCGTCAGCAAG---------GACAACTTCCTCTGGACACAAGGACC---------GCCGGTAAATGTGTACACACATATGTG----AGCCCCTCCTAAACGATACCTATTTTGACAGCAAG--------------CATCGAGTAGGCTT-------------------T
droRho1	scf7180000779318:325114-325381 -		TCCTCGCGTTCCTCCGAAGAGCGAAACTATTTACCACGCAAATTTGACAGGTAAGCAAAA---------CATTATTTACATTAAAAGACCAA--------------GTGTTGAGAATTT--------TAATTGTAGCAATAGCTACAACCACAAACGGTCGGCGTCATCCTCATCAGCCAG---------GACAACTTCCTCCGGACACAAGGACC---------GCCGGTAAATGTGTACACACAGATGCATGTGTG-CCCCCCTACACGATAATT--TTTGACACCGAG--------------CATCGAGTAGTCTG-----GCAGTTTAGAAAAGT
droEug1	scf7180000409462:2345499-2345765 +		TCCTCGCGTTCTTCCGAAGAGCGAAACTATTTACATCGTAAATTTGACAGGTAAGCAAAATGCAATATAAAATATGTACCTAAAAAGTTAAA--------------GTGTTGAGA---------ACTCAATTGCAGCAGTAGCTACAAACACAAGCGCTCCGCGTCATCATCGTCAGCCAG---------GACAACTTCCTCCGGACACAAGGACC---------GCAGGTAAATGTGTACACACTTAAGTAT----TAAACTCCTAAACGATACCTA-TTTGACATCAAG--------------CATCGAGTAGTTTTGGCTGACA------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droPer2

CGCTCGCGTTCTCCCAAGGATGGAAGTCATTCGCATCGCAACCATGCCAGGTAAGCCATA----------------------AAAAGGAAAAA-AGGTGACCCGGG--------GTCTTTAATAGTGCAGTTAC---AGGAACTACAAACACAAGCGTTCCGGATCGTCGTCATCGTCTGGCTCCTCATCGTCTGCCTCGTCCAGACACGAAAATAGCCCATCCCTCAGGTAAATACA-ACAAATGTAGATAT----C------------------------------GAGTAACCGGGTATCGACATCAAGTAGGCTA-------------------T	Size	Hit Count	Total Norm	Total	M021 Embryo	M042 Female-body	V042 Embryo	V050 Head	V057 Head	V111 Male-body
........................................................................................................................................................AAGCGTTCCGGATCGTCGTC.......................................................................................................................................................................	20	1	2.00	2	2	0	0	0	0	0
...............................................................................................................................................................CCGGATCGTCGTCATCGTCTGGCTCCC.........................................................................................................................................................	27	1	1.00	1	1	0	0	0	0	0
.......................................................................................................................................................................................................................................................................................................CGGGTATCGACATCAAGTAGGA......................	22	1	1.00	1	0	0	0	0	0	1

dp5

CGCTCGCGTTCTCCCAAGGATGGAAGTCATTCGCATCGCAACCATGCCAGGTAAGCCATA----------------------AAAAGGAAAAA-AGGTGACCCGGG--------GTCTTTAATAGTGCAGTTAC---AGGAACTACAAACACAAGCGTTCCGGATCGTCGTCATCGTCTGGCTCCTCATCGTCTGCCTCGTCCAGACACGAAAATAGCCCATCCCTCAGGTAATTACA-ACAAATTTAGATAT----C------------------------------GAGTAACCGGGTATCGACATCGAGTAGGCTA-------------------T	Size	Hit Count	Total Norm	Total	M022 Male-body	M040 Female-body	M059 Embryo	M062 Head	V043 Embryo	V051 Head	V112 Male-body	SRR902010 Ovary	SRR902011 Testis	SRR902012 CNS imaginal disc
....................................................................................................................................................................................................................................................TTTAGATAT----C------------------------------GAGTAACCGG.........................................	20	1	2.00	2	0	0	0	0	0	0	0	0	2	0
............................................................................................................................................AACTACAAACACAAGCGTTCC..................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
...TCGCGTTCTCCCAAGGATG.............................................................................................................................................................................................................................................................................................................................	19	1	1.00	1	0	0	0	0	1	0	0	0	0	0
..CTCGCGTTCTCCCAAGGATGG............................................................................................................................................................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..................................................................................................................................................AAACACAAGCGTTCCGGAT..............................................................................................................................................................................	19	1	1.00	1	0	1	0	0	0	0	0	0	0	0
..........................................................................................................................................................................TCATCGTCTGGCTCC..........................................................................................................................................................	15	1	1.00	1	0	0	0	0	0	0	0	0	0	1
.............................................................................................................................................ACTACAAACACAAGCGTTCCG.................................................................................................................................................................................	21	1	1.00	1	0	1	0	0	0	0	0	0	0	0

droFic1

TCCTCCCGTTCCTCCGAAGAGCGAAACTATTTACATCGCAAATTCGACAGGTAAGCAAAA----------------------ATAACTTAAAATACATAGAGCGCTGTGTTGAGA--------GTCTCGATTGCAGTAGTAGCTACAAGCACAAGCGGTCTGCTTCCTCCTCGTCAGCAAG---------GACAACTTCCTCTGGACACAAGGACC---------GCCGGTAAATGTGTACACACATATGTG----AGCCCCTCCTAAACGATACCTATTTTGACAGCAAG--------------CATCGAGTAGGCTT-------------------T	Size	Hit Count	Total Norm	Total
No Reads

droRho1

TCCTCGCGTTCCTCCGAAGAGCGAAACTATTTACCACGCAAATTTGACAGGTAAGCAAAA---------CATTATTTACATTAAAAGACCAA--------------GTGTTGAGAATTT--------TAATTGTAGCAATAGCTACAACCACAAACGGTCGGCGTCATCCTCATCAGCCAG---------GACAACTTCCTCCGGACACAAGGACC---------GCCGGTAAATGTGTACACACAGATGCATGTGTG-CCCCCCTACACGATAATT--TTTGACACCGAG--------------CATCGAGTAGTCTG-----GCAGTTTAGAAAAGT	Size	Hit Count	Total Norm	Total
No Reads

droEug1

TCCTCGCGTTCTTCCGAAGAGCGAAACTATTTACATCGTAAATTTGACAGGTAAGCAAAATGCAATATAAAATATGTACCTAAAAAGTTAAA--------------GTGTTGAGA---------ACTCAATTGCAGCAGTAGCTACAAACACAAGCGCTCCGCGTCATCATCGTCAGCCAG---------GACAACTTCCTCCGGACACAAGGACC---------GCAGGTAAATGTGTACACACTTAAGTAT----TAAACTCCTAAACGATACCTA-TTTGACATCAAG--------------CATCGAGTAGTTTTGGCTGACA------------	Size	Hit Count	Total Norm	Total
No Reads

Generated: 06/08/2015 at 03:42 PM