dme-mir-4914

chr2L:2737568-2737661 +

Known_mirbase

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

mirtron


Legend:

   mature strand at position 2737568-2737593
   star strand at position 2737639-2737661
   mutations
   read mismatches
   coordinate mismatch (possible incorrect ortholog)

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

Species Coordinate Alignment
dm3 chr2L:2737553-2737676 + AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTCCAAT---------------------------GTGGTCC----------------------TCGAAACCAGTTGTGCTTCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGATTGGACAGCTC
droSim1 chr2L:2697912-2698035 + AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTTCATT---------------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGCTTGGACAGCTC
droSec1 super_5:903635-903758 + AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTCCATT---------------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGCTTGGACAGCTC
droYak2 chr2L:2732711-2732833 + AGACGAGCCCACAACGTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----TGATCC----------------------CCAAAACCAGTTCTACTCAGATCTGATTCC---------------A-AATTGACACATTCTCTGACCTTGAA---------TCA-CC-CACAGCGGATTGGATAGCTC
droEre2 scaffold_4929:2790150-2790269 + AGACGAGCCCACAACGTGAGTG-----------AGA--G----GTCCATT---------------------------GTGGTCC----------------------TTGAAACCAGTTCCGCTCGGTTCATGATGC---------------CAGATTGACACAT--TCCGACCTTTAA---------TCA-CC-CACAGCGGATTGGACAGCTC
droAna3 scaffold_12916:13782076-13782166 - CGATGAGCCTACAACGTAAGTG-----------TC-----------CTTT---------------------------CTAATAC----------------------TTG-------C-------TAGTCTAGTTCT---------------AACTTTATTACTC--TTC-------------------CT-TT-TTCAGTGGCTTGGACAGCAG
dp4 chr4_group4:2073904-2074060 + AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGA--G----GACCA-------GACCAGAGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTG----AC----------------------------TGACATTC--CACAACCTTGAA---------CCATCC-CACAGAGGCCTGGATAGTTC
droPer1 super_10:1078988-1079144 + AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGA--G----GACCA-------GACCAGAGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTG----AC----------------------------TGACATTC--CACAACCTTGAA---------CCATCC-CACAGAGGCCTGGATAGTTC
droWil1 scaffold_180772:1508923-1509021 + AGACGAGCCCACAACGTAAGTA-----------ATA--ACAAA----------------------------------------------------------------AAAGACCGGTTATTT----CC-TGT----TAGCCTTGAACTTAA---CCAA------------------------CATCTCAA-CC-AACAGAGGCCTGGACAGCTC
droVir3 scaffold_12963:11356884-11356997 + AGACGAGCCCACAACGTAAGCA-----------AGA--ATAGAGAATGCA---------------------ATCAATGC----------------------------GGAAACCAGTTGCTG----AC----------------------------TAACATGT--GCTTACCTTGAAATTGTAA--CCA-TT-CGCAGGGGCCTGGATAGTTC
droMoj3 scaffold_6500:20105720-20105814 + AGACGAGCCCACAACGTAAGCA-----------ACA--TCTAC----AACAGCACGATCAGATGTAGCAT--------------------------------------------------------------------------------------------------TAACCTTGAGACTGTA---TCCCTT-CACAGTGGCCTGGACAGCTC
droGri2 scaffold_15252:5474360-5474483 + GGACGAGCCCACAACGTAAGTG-----------AAACACCGAAA--CACC--------------------ACA-----CAATC------------------------GAGAACCAGTTACTG----ACTA---------------------AGCATTATTATTT--TTTAACCTTGAAATTGCATCG-CATCCATACAGGGGCCTGGACAGTTC

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

Species Coordinate Lastz Id Alignment
dm3 chr2L:2737553-2737676 + NA AGACGAGCCCACAACGTGAGTGAGAG----C------GAGTTCCAATGT--GGTCCTCG------AAACCAGTT--------------GTGCTTCGATC--AGATT--CCAAAATTG-ACACATTC--CGACCT-----------------------------------------------------------------------------TGAA-------------------------TCACCCACAGCGGATTGGACAGCTC
droSim1 chr2L:2697912-2698035 + 4 AGACGAGCCCACAACGTGAGTGAGAG----C------GAGTTTCATTGT--GGTCCTCG------AAACCAGTT--------------GCGCTCCGATC--AGATT--CCAAAATTG-ACACATTC--CGACCT-----------------------------------------------------------------------------TGAA-------------------------TCACCCACAGCGGCTTGGACAGCTC
droSec1 super_5:903635-903758 + 5 AGACGAGCCCACAACGTGAGTGAGAG----C------GAGTTCCATTGT--GGTCCTCG------AAACCAGTT--------------GCGCTCCGATC--AGATT--CCAAAATTG-ACACATTC--CGACCT-----------------------------------------------------------------------------TGAA-------------------------TCACCCACAGCGGCTTGGACAGCTC
droYak2 chr2L:2732711-2732833 + 4 AGACGAGCCCACAACGTGAGTGA--------------GAGGTCCATTGTGTGATCCCCA------AAACCAGTT--------------CTACTCAGATC--TGATT--CCA-AATTG-ACACATTCTCTGACCT-----------------------------------------------------------------------------TGAA-------------------------TCACCCACAGCGGATTGGATAGCTC
droEre2 scaffold_4929:2790150-2790269 + 6 AGACGAGCCCACAACGTGAGTGA--------------GAGGTCCATTGT--GGTCCTTG------AAACCAGTT--------------CCGCTCGGTTC--ATGAT-GCCA-GATTG-ACACATTC--CGACCT-----------------------------------------------------------------------------TTAA-------------------------TCACCCACAGCGGATTGGACAGCTC
droEug1 scf7180000409554:3374614-3374743 - 14 AGACGAGCCCACAACGTGAGTGA--------------GAGGTCCATTGT-----CCTCG------AAACCAGTT--------------CAA-TACGATCGCAG-----CCA-GATTG-ACACATTCATTGACCTTGGATCCCTT-----C--ATTC--------TGA-------------------------------------------------------------------------TCTCCCACAGTGGATTGGACAGCTC
droBia1 scf7180000302188:1736407-1736544 + 7 AGACGAGCCCACAACGTGAGTGAGAG-----------GAGGTCCCTTGT----CCCCCG-----AAAACCTGTT--------------CTG-----TGC--AGATT--CCC-GACTG-GCACATTC--CGACCTTGAACCGAACCTCATG--ATCCCCT-----TGA-------------------------------------------------------------------------TCTCCCACAGCGGATTGGACAGCTC
droTak1 scf7180000415705:481727-481859 + 12 AGACGAGCCCACAACGTGAGTGA--------------GAGGTCCATTGT-----CCTCG------AAACCAGTT--------------TAGCT-----C--AGCTT--CCA-GATTG-ACACATTC--CGACCTTGAACCGAACCCCTTG--ACTCCCT-----TGA-------------------------------------------------------------------------TCTCCCACAGCGGATTGGACAGCTC
droEle1 scf7180000491273:444403-444530 - 17 AGACGAGCCCACAACGTGAGTGA--------------GAGGACTATTGT-----CCTCG------AAACCTGTT--------------GG------C--GTAGCCCAATCG-AACTGAACATAAAC--CAACCTTGAACCTCTT----TA--ATTC--------TGA-------------------------------------------------------------------------TCTTAAACAGTGGTCTGGACAGTTC
droRho1 scf7180000766156:89923-90047 - 9 AGACGAGCCCACAACGTGAGTGA--------------GAGGTCCACTGT-----CCTCG------AAACCAGTT--------------GT------T--GCAG-----TCA-CAGTGACCACATCC--GAGCCTTGAACCCTTTCT--TA--ATTC--------TGA-------------------------------------------------------------------------TCTCCCACAGTGGCCTGGACAGTTC
droFic1 scf7180000453924:665442-665575 + 3 AGACGAGCCCACAACGTGAGTGGTGGTG--A------GAGGACCATTGT-----CCTCG------GAACCTGTTCCCCCCATTAAGAATC-------------------------AG-TTGCATTC--AGACCTTGAACCCTTTCTC-T-----TTCCA-----TGA-------------------------------------------------------------------------TCCACCGCAGTGGCCTGGACAGCTC
droKik1 scf7180000302473:48902-49018 - 17 AGACGAGCCCACAACGTGAGTGA--------------GAGGTGCCCCAT-----CCTCG------G---------------TGCAGAACC----------------------AGTTG-ACAGAACC--CGACCTTGAACCTGATCTC-TGA-TCTC-CA-------T-------------------------------------------------------------------------TCTCCCACAGCGGCCTGGACAGCTC
droAna3 scaffold_12916:13439490-13439581 + 6 GGACGAGCCAACAACGTAAGT--------------------------------TCTCTG------AAACCA----------------------------------------------------TTC--CAATTTTCAAACTTATCA---------------------------------------------------------------------------------AGTTGTTAATGTCTTTCACACAGGGGCTTGGATAGTTC
droBip1 scf7180000396580:12674-12774 - 16 GGATGAACCCACAACGTAAGTTG-------------------------T-----CTTTC------G---------------TAAGGTTTCGTTTG-------------------------------------------------------TA--TAATC---------------------------------------------------TTGAATTTA-----TTAAACTGTTGATATCTTTAACGCAGGGGCTTGGACAGTTC
dp4 chr4_group3:8468658-8468770 + 8 CGAGTTGCGAATTTGCTGC--CA---------TAGGTCAGGTGAACACT-----CATTA------AAAGCCGT------------------------------------------TG-AGTCATAC--CATACTTAAAGTGTAATT--TGTT--TTCTC---------------------------------------------------------------------------------TCATTTTTAGTGGTCTAGACAGCTC
droPer1 super_1:9919618-9919741 + 5 TAATGAGTTACCGACTTGCGAATTTGCTGCCATAGGTCAGGTGAACACT-----CATTA------AAAGCCGT------------------------------------------TG-AGTCATAC--CATACTTAAAGTGTAATT--TGTT--TTCTC---------------------------------------------------------------------------------TCATTTTTAGTGGTCTAGACAGCTC
droWil1 scaffold_180772:1508923-1509021 + 3 AGACGAGCCCACAACGTAAGTAATAA----C------AAA-----------------AA------AGACCGGTT--------------ATTTCC------------------------------------------------------------------------------------------------------------TGTTAGCCTTGAACTTAACCAACAT----------CT-CAACCAACAGAGGCCTGGACAGCTC
droVir3 scaffold_12963:11356884-11356997 + 6 AGACGAGCCCACAACGTAAGCAAGAA----T------AGAGAATGCAAT-----C---AATGCGGAAACCAGTT--------------GCT---------------------GACTA-ACATGTGC--TTACCT-----------------------------------------------------------------------------TGAAATTG-----TAA-------------CCATTCGCAGGGGCCTGGATAGTTC
droMoj3 scaffold_6308:1548466-1548588 - 14 CGACGAGCCCACGTCGGGCCTGG------------------------------------------ACTCCTTTA--------------CCGCCCACAGCGTCGTCCA-----GG----------------------------------------TGCTGAAGAA---GCTATCGCAAAAGGGCAAGACCGTCATACTGAC---------CATACA-------------------------TCAGCCATCG----TCGGAGCTCTT
droGri2 scaffold_15252:5474360-5474483 + 3 GGACGAGCCCACAACGTAAGTGAAACAC--C------GAAACACCACAC--AA---TCG-----AGAACCAGTT--------------AC----TG-----------------ACTA-A------------------------------------------------GCATTATTA------------------------TTTTTTAACCTTGAAATTG-----CAT----------CGCATCCATACAGGGGCCTGGACAGTTC

[View All Possible Orthologs]

Original 12-way multiz alignment with reads super-imposed

Species Alignment
dm3
AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTCCAAT---------------------------GTGGTCC----------------------TCGAAACCAGTTGTGCTTCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGATTGGACAGCTCSizeHit CountTotal Norm
droSim1
AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTTCATT---------------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGCTTGGACAGCTCSizeHit CountTotal NormV044
Embryo
M023
Head
M024
Male body
M025
Embryo
.......................................CGAGTTTTATT---------------------------GTGGGCC----------------------............................................................................................................18151.000.0014.004.0033.00
.......................................CGAGTGTCATT---------------------------GTGGGCC----------------------............................................................................................................1811.000.000.000.001.00
.......................................CGAGTGTTATT---------------------------GTGGTCC----------------------............................................................................................................1811.000.000.000.001.00
......................................GCGAGTTTTATT---------------------------GTGGGCC----------------------............................................................................................................1911.000.000.000.001.00
..........................................................................................................................TCCGxTCAGATTGC---------------AAAAT..........................................................1811.000.001.000.000.00
.........................................ATTTTCATT---------------------------GTGGTCG----------------------TC..........................................................................................................1811.000.000.001.000.00
droSec1
AGACGAGCCCACAACGTGAGTG-----------AGA--GCGAGTTCCATT---------------------------GTGGTCC----------------------TCGAAACCAGTTGCGCTCCGATCAGATTCC---------------AAAATTGACACAT--TCCGACCTTGAA---------TCA-CC-CACAGCGGCTTGGACAGCTCSizeHit CountTotal NormV113
Male body
V114
Embryo
V115
Head
................................................................................................................................CAGATTCT---------------AAAATTGAAA.....................................................1811.000.001.000.00
droYak2
AGACGAGCCCACAACGTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----TGATCC----------------------CCAAAACCAGTTCTACTCAGATCTGATTCC---------------A-AATTGACACATTCTCTGACCTTGAA---------TCA-CC-CACAGCGGATTGGATAGCTCSizeHit CountTotal NormV046
Embryo
V052
Head
V120
Male body
V058
Head
M026
Head
...........................................................................................................................................................TTGACACATTCTCTGACCTTGAA---------TCA-CC-C...................2917.000.000.000.000.007.00
...........................................................................................................................................................TTGACACATTCTCTGACCTTGAA---------TCA-CC-....................2817.000.000.000.000.007.00
..........................................................................................................................................................ATTGACACATTCTCTGACCTTGAA---------TCA-CC-....................2917.000.000.000.000.007.00
............................................................................................................................................................TGACACATTCTCTGACCTTGAA---------TCA-CC-....................2715.000.000.000.000.005.00
...............GTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----........................................................................................................................................2113.000.000.002.001.000.00
......................................................................................................................................................................TCTGACCTTGAA---------TCA-CC-CACAG...............2212.000.000.000.000.002.00
...............GTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----T.......................................................................................................................................2212.000.000.002.000.000.00
......................................................................................................................................................................TCTGACCTTGAA---------TCA-CC-C...................1812.000.000.000.000.002.00
.................................................................................................................................................................................A---------TCA-CC-CACGGCGGATTGC.......1912.000.000.000.000.002.00
...................................................................................................................................................................TTCTCTGACCTTGAA---------TCA-CC-C...................2112.000.000.000.000.002.00
................................................................................................................................CTGATTCC---------------A-AATTGACACATTCTCTGACC.........................................2912.000.000.000.000.002.00
...........................................................................................................................................................TTGACACATTCTCTGACCT........................................1911.000.000.000.000.001.00
..........................................................................................................................................................ATTGACACATTCTCTGACC.........................................1911.000.000.000.000.001.00
............................................................................................................................................................TGACACATTCTCTGACCTTGAA---------TCA-CC-A...................2811.000.000.000.000.001.00
....................................................................................................................................TTCC---------------A-AATTGACACATTCTCTGACCTT.......................................2711.000.000.000.000.001.00
...............GTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----TGATC...................................................................................................................................2611.000.000.001.000.000.00
...............GTGAGTG-----------AGA--G----GTCCATT--------------------GTG-----TGAT....................................................................................................................................2511.000.000.001.000.000.00
AGACGCGCCGACAACGTG....................................................................................................................................................................................................1811.000.001.000.000.000.00
..........................................................................................................................................................ATTGACACATTCTCTGACCTTGAA---------...........................2411.000.000.000.000.001.00
..........................................................................................................................................................ATTGACACATTCTCTGACCTTGAA---------T..........................2511.000.000.000.000.001.00
....................................................................................................................................TTCC---------------A-AATTGACACATTCTCTGACCT........................................2611.000.000.000.000.001.00
..................................................................................................................................................................ATTCTCTGACCTTGAA---------TCA-CC-CAC.................2411.000.000.000.000.001.00
...............GTGAGTG-----------AGA--G----GTCCATT--------------------GT..............................................................................................................................................2011.000.000.001.000.000.00
.................................................................................................................................................................CATTCTCTGACCTTGAA---------TCA-CC-C...................2311.000.000.000.000.001.00
.................................................................................................................................TGATTCC---------------A-AATTGACACATTCTCTGACC.........................................2811.000.000.000.000.001.00
......................................................................................................................................................................TCTGACCTTGAA---------TCA-CC-CACAGT..............2311.000.000.000.000.001.00
droEre2
AGACGAGCCCACAACGTGAGTG-----------AGA--G----GTCCATT---------------------------GTGGTCC----------------------TTGAAACCAGTTCCGCTCGGTTCATGATGC---------------CAGATTGACACAT--TCCGACCTTTAA---------TCA-CC-CACAGCGGATTGGACAGCTCSizeHit CountTotal NormV040
Embryo
V060
Head
V047
Embryo
V108
Head
AGACGCGCCGACAACGTG....................................................................................................................................................................................................1814.000.000.000.004.00
...................................................................................................................................................................T--TCCGACCTTTAA---------TCA-CC-CACAGT..............2411.000.001.000.000.00
................................................................................................................CCAGTTCCGAGCGGTTCA....................................................................................1811.000.000.000.001.00
droAna3
CGATGAGCCTACAACGTAAGTG-----------TC-----------CTTT---------------------------CTAATAC----------------------TTG-------C-------TAGTCTAGTTCT---------------AACTTTATTACTC--TTC-------------------CT-TT-TTCAGTGGCTTGGACAGCAGSizeHit CountTotal NormV105
Male body
V106
Head
V055
Unknown
V039
Embryo
dp4
AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGA--G----GACCA-------GACCAGAGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTG----AC----------------------------TGACATTC--CACAACCTTGAA---------CCATCC-CACAGAGGCCTGGATAGTTCSizeHit CountTotal NormV112
Male body
V043
Embryo
V051
Head
M022
Male body
..................................................................................AAAAAAGxGAAGAGAAACCA................................................................................................................1911.000.001.000.000.00
...............................................................................................................................................................................................CA-CAxACAGGCCTGGATAGTT.2011.000.000.001.000.00
.......................................................GACCAGCGGCAGCATCAGC............................................................................................................................................1911.000.001.000.000.00
droPer1
AGACGAGCCCACAACGTAAGTATCGAACGAGTGAGA--G----GACCA-------GACCAGAGGCAGCATCTGCGATGCGGTCGAAAAGAGAAGAGAAACCAGAGAGCTAAACCAGTTGCTG----AC----------------------------TGACATTC--CACAACCTTGAA---------CCATCC-CACAGAGGCCTGGATAGTTCSizeHit CountTotal NormV111
Male body
V042
Embryo
V050
Head
V057
Head
M021
Embryo
................................................................................................................................................................................................C-CACAGAGGCCAGGATAA...1811.000.000.000.001.000.00
droWil1
AGACGAGCCCACAACGTAAGTA-----------ATA--ACAAA----------------------------------------------------------------AAAGACCGGTTATTT----CC-TGT----TAGCCTTGAACTTAA---CCAA------------------------CATCTCAA-CC-AACAGAGGCCTGGACAGCTCSizeHit CountTotal NormV117
Male body
V118
Embryo
V119
Head
M020
Head
.................AAGAA-----------AAA--ACAAA----------------------------------------------------------------AAAGA......................................................................................................18100.100.000.100.000.00
droVir3
AGACGAGCCCACAACGTAAGCA-----------AGA--ATAGAGAATGCA---------------------ATCAATGC----------------------------GGAAACCAGTTGCTG----AC----------------------------TAACATGT--GCTTACCTTGAAATTGTAA--CCA-TT-CGCAGGGGCCTGGATAGTTCSizeHit CountTotal NormV116
Male body
V053
Unknown
V047
Embryo
M027
Male body
M028
Head
droMoj3
AGACGAGCCCACAACGTAAGCA-----------ACA--TCTAC----AACAGCACGATCAGATGTAGCAT--------------------------------------------------------------------------------------------------TAACCTTGAGACTGTA---TCCCTT-CACAGTGGCCTGGACAGCTCSizeHit CountTotal NormV110
Male body
V056
Unknown
V049
Head
V041
Embryo
droGri2
GGACGAGCCCACAACGTAAGTG-----------AAACACCGAAA--CACC--------------------ACA-----CAATC------------------------GAGAACCAGTTACTG----ACTA---------------------AGCATTATTATTT--TTTAACCTTGAAATTGCATCG-CATCCATACAGGGGCCTGGACAGTTCSizeHit CountTotal NormV109
Male body

12-way Secondary Structure

dm3 droSim1 droSec1 droYak2 droEre2 droAna3 dp4 droPer1 droWil1 droVir3 droMoj3 droGri2
RNAfold Image
UNAFold Image

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
UNAFold Image

Generated: 04/20/2012 at 05:14:00 EDT