Locus 14377

Sequence ID dm3.chrX
Location 12,956,321 – 12,956,414
Length 93
Max. P 0.999137
window19793 window19794

overview

Window 3

Location 12,956,321 – 12,956,414
Length 93
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 86.52
Shannon entropy 0.23711
G+C content 0.35975
Mean single sequence MFE -34.64
Consensus MFE -30.60
Energy contribution -33.72
Covariance contribution 3.12
Combinations/Pair 1.13
Mean z-score -7.07
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.74
SVM RNA-class probability 0.994812
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12956321 93 + 22422827
CAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACCACAGGAAUCCUCAUAAAACUGGUAUAAGCACGAAAUUAA---
........(((.((((((((.(((((((..(((((....)))))((((.((......)).))))))))))).)))))))))))..........--- ( -32.50, z-score =  -6.96, R)
>droEre2.scaffold_4690 4834194 95 - 18748788
CAAUAAAAACUCUAUACCAGAUUUACGAUACGUUCUUCGGAAUGGGAAACCUCU-UAGGUAUCCUCGUAAAACUGGUAUAAGCACUAAGGAAUAUA
............((((((((.(((((((..(((((....)))))(((.(((...-..))).)))))))))).))))))))................ ( -32.30, z-score =  -5.88, R)
>droYak2.chrX 7230020 93 + 21770863
CAAUAAAAACUCGAUACCAGAUUUAUGAUAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUGAGCACGAAAUUUC---
.........(((.(((((((.(((((((..(((((....)))))(((((((......)))))))))))))).))))))))))...........--- ( -34.80, z-score =  -6.93, R)
>droSec1.super_21 701468 93 + 1102487
CAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAGCACGAAAUUCA---
........(((.((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))))))..........--- ( -36.80, z-score =  -7.65, R)
>droSim1.chrX 9863011 93 + 17042790
CAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAGCACAAAAUUCA---
........(((.((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))))))..........--- ( -36.80, z-score =  -7.94, R)
>consensus
CAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAGCACGAAAUUAA___
........(((.((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))))))............. (-30.60 = -33.72 +   3.12)

alignment

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secondary structure

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dotplot

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Window 4

Location 12,956,321 – 12,956,414
Length 93
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 86.52
Shannon entropy 0.23711
G+C content 0.35975
Mean single sequence MFE -29.76
Consensus MFE -28.06
Energy contribution -28.30
Covariance contribution 0.24
Combinations/Pair 1.07
Mean z-score -4.70
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.67
SVM RNA-class probability 0.999137
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12956321 93 - 22422827
---UUAAUUUCGUGCUUAUACCAGUUUUAUGAGGAUUCCUGUGGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUG
---..........(((((((((((.(((((((.(((((.((..((((....))))..))..)))).).))))))).)))))))).)))........ ( -28.60, z-score =  -4.02, R)
>droEre2.scaffold_4690 4834194 95 + 18748788
UAUAUUCCUUAGUGCUUAUACCAGUUUUACGAGGAUACCUA-AGAGGUUUCCCAUUCCGAAGAACGUAUCGUAAAUCUGGUAUAGAGUUUUUAUUG
.............(((((((((((.((((((((((.(((..-...))).)))..(((....)))....))))))).))))))).))))........ ( -25.90, z-score =  -3.39, R)
>droYak2.chrX 7230020 93 - 21770863
---GAAAUUUCGUGCUCAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUAUCAUAAAUCUGGUAUCGAGUUUUUAUUG
---..........(((((((((((..(((((((((((((......))))))).((((....))))...))))))..))))))).))))........ ( -31.50, z-score =  -5.68, R)
>droSec1.super_21 701468 93 - 1102487
---UGAAUUUCGUGCUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUG
---..........(((((((((((..(((((((((((((......))))))).((((....))))...))))))..)))))))).)))........ ( -31.40, z-score =  -5.22, R)
>droSim1.chrX 9863011 93 - 17042790
---UGAAUUUUGUGCUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUG
---..........(((((((((((..(((((((((((((......))))))).((((....))))...))))))..)))))))).)))........ ( -31.40, z-score =  -5.19, R)
>consensus
___UGAAUUUCGUGCUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUG
.............(((((((((((..(((((((((((((......))))))).((((....))))...))))))..)))))))).)))........ (-28.06 = -28.30 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:39:03 2011