dme-mir-984

chrX:4262679-4262768 -

Known_mirbase
[View on miRBase] [View on UCSC Genome Browser {Cornell Mirror}]

antisense_to_intron

Legend:

   mature strand at position 4262731-4262753
   star strand at position 4262694-4262714
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

12-way Fast Statistical Aligner re-alignment (From MAFs)

Species Coordinate Alignment
dm3 chrX:4262664-4262783 - TGGCTTCTATTGCGTAGAAACAAATTTCATTGAGGTAAATACGGTTGGAATTTTGTCTTTTAACTATAAATCCAACCGAATTTGGCTCGGCGAAATTTTTCAGTTTACTGGCGTCGAAAA
droSim1 chrX:3277467-3277474 - TGGCTTCT----------------------------------------------------------------------------------------------------------------
droSec1 super_4:2462188-2462215 + TGGCTTCTACTATCTA--------CTTCATTGC------------------------------------------------------------------------------------TTT
droYak2 Unknown ------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:1633261-1633294 - ATTC---------------------------------------------------------------------AGTCAATTCTGAGTCTTGTAAATGT-----------------ACAAA
droAna3 Unknown ------------------------------------------------------------------------------------------------------------------------
dp4 Unknown ------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown ------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown ------------------------------------------------------------------------------------------------------------------------
droVir3 scaffold_12928:5270689-5270688 - ------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6359:3791288-3791288 - T-----------------------------------------------------------------------------------------------------------------------
droGri2 Unknown ------------------------------------------------------------------------------------------------------------------------

20-way Fast Statistical Aligner re-alignment (Top LASTZ hits)

Species Coordinate Lastz Id Alignment
dm3 chrX:4262664-4262783 - NA TGGC-TTCTATT-GCGTAGA-----AACAAATTTCATTGAG-----------------------------------------------------------GTAAATACGGTTGGAATTTTGT--CTTTTAACTATAA---ATCCAACCGAATTTGGCTCGGCGAAATTTTTCAGTTTACTGG-----CGTCGAAAA
droSim1 chrX:3277428-3277474 - 2 TGGC-TTCTACT-CTCT-------------ACTTCATTGCT-----------------------------------------------------------TTGCATATGAT------------------------------------------------------A---------------------TCTTGCAGT
droSec1 super_4:2462188-2462234 + 1 TGGC-TTCTACT-ATCT-------------ACTTCATTGCT-----------------------------------------------------------TTGCATATGAT------------------------------------------------------A---------------------TGTTGCAGT
droYak2 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droEre2 scaffold_4690:1633226-1633277 - 2 CTTG-TAAATGT-A----CA-----AACAAATCTCAGTGTA-----------------------------------------------------------TAGCTTAAATC------------------------------------------------------C---------------------ACCGGAATT
droEug1 scf7180000409076:263221-263311 - 2 TTCATTTATTTTTTCTATGATTTTGAC-AGTTA--ATT-------------------------------------------------------------------------TGAGGTTTTGT--TTTCAAATTATAA---AGCTGA---AAATTGACTTGTCGAAA---------------------TCTTTAAAA
droBia1 scf7180000301703:494692-494801 + 1 TGAT-TTATTTT-GCCATATTTGTTAACATATTCTAAAAAGATCAATTTTTTTACAATATTAAACCATATTTCTTGTAAACGTTCCATTGATTTTATGATTGG------------------------------------------------------------------------------------TGCTGTACA
droTak1 scf7180000415394:1159636-1159737 + 2 TTAG-TACTTAT-A----TA----------------------------------------------------------AATGTTACAATGTTTTAGTGACTGGTTCAGT--ATCAA--CTATGTTT-CTAA----TTCAGT---------------------TGTACTTTTCCAGTTCCTAGATCAATGTCACGAA
droEle1 scf7180000491011:2112563-2112618 + 3 AACT-GA-------------------------------------------------------------------------------------------------------------------ATTC-TTGAATATTTCAGT---------------------AATGTTTTTCAACTCACTAAAACA--ATGGTAAC
droRho1 scf7180000779334:414414-414509 + 2 TATC-ATACATT-GCAGAGATTTTAGA-AGTCG--AGA-------------------------------------------------------------------------ATGGTTACTGTATTT-TTAAATATAACAGTGACCA---GACCCGAAC-----------------TCT-CCAATCTTTGTCAAAAA
droFic1 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droKik1 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droAna3 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droBip1 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
dp4 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droPer1 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droWil1 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droVir3 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droMoj3 scaffold_6359:3791288-3791288 - 2 T---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
droGri2 Unknown NA ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species Alignment
dm3
TGGCTTCTATTGCGTAGAAACAAATTTCATTGAGGTAAATACGGTTGGAATTTTGTCTTTTAACTATAAATCCAACCGAATTTGGCTCGGCGAAATTTTTCAGTTTACTGGCGTCGAAAASizeHit CountTotal Norm
droSim1
TGGCTTCT----------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV044
Embryo		M023
Head		M024
Male body		M025
Embryo
droSec1
TGGCTTCTACTATCTA--------CTTCATTGC------------------------------------------------------------------------------------TTTSizeHit CountTotal NormV113
Male body		V114
Embryo		V115
Head
droYak2
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV046
Embryo		V052
Head		V120
Male body		V058
Head		M026
Head
droEre2
ATTC---------------------------------------------------------------------AGTCAATTCTGAGTCTTGTAAATGT-----------------ACAAASizeHit CountTotal NormV040
Embryo		V060
Head		V047
Embryo		V108
Head
droAna3
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV105
Male body		V106
Head		V055
Unknown		V039
Embryo
dp4
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV112
Male body		V043
Embryo		V051
Head		M022
Male body
droPer1
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV111
Male body		V042
Embryo		V050
Head		V057
Head		M021
Embryo
droWil1
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV117
Male body		V118
Embryo		V119
Head		M020
Head
droVir3
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV116
Male body		V053
Unknown		V047
Embryo		M027
Male body		M028
Head
droMoj3
T-----------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV110
Male body		V056
Unknown		V049
Head		V041
Embryo
droGri2
------------------------------------------------------------------------------------------------------------------------SizeHit CountTotal NormV109
Male body

12-way Secondary Structure

dm3 droSim1 droSec1 droYak2 droEre2 droAna3 dp4 droPer1 droWil1 droVir3 droMoj3 droGri2
RNAfold Image None None None None None None None None None
UNAFold Image None None None None None None None None None None

20-way Secondary Structure

dm3 droSim1 droSec1 droYak2 droEre2 droEug1 droBia1 droTak1 droEle1 droRho1 droFic1 droKik1 droAna3 droBip1 dp4 droPer1 droWil1 droVir3 droMoj3 droGri2
RNAfold Image None None None None None None None None None None None
UNAFold Image None None None None None None None None None None None

Generated: 04/20/2012 at 05:25:17 EDT