Locus 12407

Sequence ID dm3.chr4
Location 746,397 – 746,517
Length 120
Max. P 0.588749
window17049

overview

Window 9

Location 746,397 – 746,517
Length 120
Sequences 15
Columns 120
Reading direction forward
Mean pairwise identity 77.46
Shannon entropy 0.51936
G+C content 0.43056
Mean single sequence MFE -32.27
Consensus MFE -11.87
Energy contribution -11.37
Covariance contribution -0.50
Combinations/Pair 1.57
Mean z-score -1.90
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.588749
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr4 746397 120 + 1351857
AAGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGCUAUUGUCAUCCCCGAAACCGGACAUUGAAUGGUUUCGAAGUGACAAUAAAGUAGUAGAAGAUGUCCGAACCAAAUUUAAAA
.....(((..(((((.((((.......)))).)))))..(((((((((...((((((((.........))))))))..)))))))))..............)))................ ( -29.60, z-score =  -2.85, R)
>droSim1.chr4 580324 120 + 949497
AAGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGCUAUUGUCAUCACCGAAACCGGACAUUGAAUGGUUUCGAAGUGACAAUAAAGUAGUAGAAGAUGUCCGAACCAAAUUCAAAA
..(((..((.(((((.((((.......)))).)))))..(((((((((...((((((((.........))))))))..)))))))))......................))..))).... ( -31.60, z-score =  -3.00, R)
>droSec1.super_30 463605 120 + 664411
AAGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGCUAUUGUCAUCUCCGAAACCGGACAUUGAAUGGUUUCGAAGUGACAAUAAAGUAGUAGAAGAUGUCCGAACCAAAUUCAAAA
..(((..((.(((((.((((.......)))).)))))..((((((((.((.((((((((.........)))))))).))))))))))......................))..))).... ( -32.60, z-score =  -3.07, R)
>droYak2.chr4 810313 120 + 1374474
AAGAAGAUGAUGGUAAUCGAUUGAUAUUUGAGUGCCAGUUAUUGUCAUCCCCGAAACCGGAAAUUGAAUGGUUUCGAAGUGACAAUAAAGUAGUAGAAGAUGCUCGAACCAAAUUCAAAA
..(((..((.(((((.((((.......)))).))))).((((((((((...((((((((.........))))))))..)))))))))).(.((((.....)))))....))..))).... ( -31.80, z-score =  -3.74, R)
>droEre2.scaffold_4512 769179 120 - 1286254
AAGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGUCAGUUAUUAUCAUCCCCGAAGCCGGAAAUUGAAUGGUUUCGAAGUGACAAUAAAGUCGUAGAAGAUGUCCGAACCAAAUUCAAAA
........((((..(((.(((((((((....))))))))))))..)))).(((....)))...(((((((((((.((..((((......)))).........)).))))))..))))).. ( -26.20, z-score =  -1.29, R)
>droAna3.scaffold_13089 573831 120 + 978470
AGGAGGAUGAUGGAAAUCGGUUAAUAUUUGAGUGUCAGAUACUGUCAUCCCCGAAGCCAGAUAUUGAAUGGUUCCGGAGUGAUAAUAAGCUUGUAGAAGAUGAGCGAACCAAAUUUAAAA
.((.(((((((((...........((((((.....)))))))))))))))(((.(((((.........))))).)))...........(((..(.....)..)))...)).......... ( -28.80, z-score =  -1.68, R)
>dp4.Unknown_group_10 47592 120 + 72859
AGGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGUUAUUGUCAUCUCCGAAACCGGACAUUGAUUGGUUUCGUAGUGACAACAAAUUAGUAGAAGAUGGCCGGACCAAAUUCAAAA
.....((((((((((.((((.......)))).))))).)))))((((.((.(((((((((.......))))))))).))))))............(((..(((.....)))..))).... ( -32.30, z-score =  -1.85, R)
>droPer1.super_42 549830 120 + 623919
AGGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGUUAUUGUCAUCUCCGAAACCGGACAUUGAUUGGUUUCGUAGUGACAACAAAUUAGUAGAAGAUGGCCGGACCAAAUUCAAAA
.....((((((((((.((((.......)))).))))).)))))((((.((.(((((((((.......))))))))).))))))............(((..(((.....)))..))).... ( -32.30, z-score =  -1.85, R)
>droWil1.scaffold_181130 1667194 120 + 16660200
AGGAGGAUGACGGCAAUCGCCUCAUAUUUGAGUGCCAACUAUUGUCAUCGCCCAAGCCGGACAUUGAAUGGUUUCGCAGCGAUAAUCAAUUGACAGAGGAUGGUCGAACAAAGUUCAAGA
.((..((((((((.....((((((....)))).))......))))))))..)).....((((.(((..((((((((...))).))))).(((((........))))).))).)))).... ( -30.00, z-score =   0.18, R)
>droVir3.scaffold_13052 1536884 120 + 2019633
AAGAAGAUGACGGCAAUCGGUUGAUAUUUGAGUGUCAGCUAGUGUCGUCCCCGAAGCCAGAUAUCGAGUGGUUUCGUAGUGACAACAAAUUAACAGAGGAUGCCAGAACCAAAUUUAAAA
...........((((.(((((((((((....)))))))))..(((((.(..((((((((.........))))))))..)))))).............)).))))................ ( -32.20, z-score =  -2.54, R)
>droGri2.scaffold_14822 542964 120 + 1097346
AGGAGGACGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGCUGCUUUCGUCGCCCAAACCGGAUAUCGAAUGGUAUCGCAGCGAUAACAAACUAACAGAGGAUGCCCGUACCAAAUUUAAAA
....(((((.(((((.((((.......)))).)))))(((((......((.......))((((((....)))))))))))........................))).)).......... ( -28.60, z-score =  -0.17, R)
>droMoj3.scaffold_6498 539892 120 + 3408170
AAGAAGAUGACGGUAAUCGGUUGAUAUUUGAAUGUCAGCUGCUGUCGUCCCCGAAGCCGGAUAUAGAGUGGUUUCGAAGUGACAACAAACUAACAGAGGAUGUGAGAACCAAAAUUAAAG
.....(((((((((....(((((((((....))))))))))))))))))..((((((((.........))))))))..((....(((..((.....))..)))....))........... ( -31.90, z-score =  -2.41, R)
>anoGam1.chr2R 55541216 120 - 62725911
AGGAGGACGACGGCAACCGGUUGAUAUUCGAGUGUCAGCUGGUGGCGAAGCCGAAACCGACCAUCGAAUGGUACCGCAGCGAGGAGCUGCUGUCCGAGAACGCGCGCACCAAGUUCAAGA
....(((((.(((..((((((((((((....))))))))))))(((...)))....)))(((((...)))))...(((((.....))))))))))..((((...........)))).... ( -44.00, z-score =  -1.20, R)
>apiMel3.Group2 14086011 120 - 14465785
AGGAGGACGACGGAAAUCGGCUGAUCUUCGAGUGCCAGCUGAUCAGCUCGCCGAAGCCCGAGAUAUCGUGGUAUCGGGGCGAGGUCGAGCUUGGCCCCGACACGAGGACCAACUUCCGGA
.(((((.(((......)))..((.((((((.(.((.((((....)))).)))...((((((....))).))).(((((((.(((.....))).)))))))..)))))).)).)))))... ( -48.20, z-score =  -0.68, R)
>triCas2.ChLG1X 1228485 120 + 8109244
AAGAAGAUGACGGCAAUAAACUUAUUUUCGAAUGCCAACUAUUGUCAAACCCAAAACCCGAUAUCCAAUGGUUCCGAAGCGAUACACUACUGUCAGAAGACAGUAGAACCAAUAUCAAGA
.....((((..((............(((((...((((.....((((.............)))).....))))..))))).......((((((((....))))))))..))..)))).... ( -23.92, z-score =  -2.38, R)
>consensus
AAGAAGAUGAUGGCAAUCGAUUGAUAUUUGAGUGCCAGCUAUUGUCAUCCCCGAAACCGGACAUUGAAUGGUUUCGAAGUGACAAUAAACUAGUAGAAGAUGCCCGAACCAAAUUCAAAA
..(((((((((((((.((((.......)))).)))).......))))))...................((((((...............................))))))..))).... (-11.87 = -11.37 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:01:31 2011