Locus 15426

Sequence ID dm3.chrX
Location 18,975,423 – 18,975,540
Length 117
Max. P 0.892975
window21252 window21253

overview

Window 2

Location 18,975,423 – 18,975,540
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 87.76
Shannon entropy 0.16837
G+C content 0.35692
Mean single sequence MFE -25.83
Consensus MFE -16.97
Energy contribution -17.53
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.38
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.624680
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18975423 117 + 22422827
AAAGUAUGUAUUUACCUCCUUGACUUUUCGAUUAAAGUGAUUACUUUAGUGAUUUUUAUUGGAGUUGUUUCAUUGCGCUGAAUACAUCUUAAGUAUAUCUUGCUCCGCCAAGAGAUG
.(((.(((((((((.((((........((.((((((((....))))))))))........))))..((......))..)))))))))))).......(((((......))))).... ( -22.69, z-score =  -1.19, R)
>droSim1.chrX 14670968 108 + 17042790
----AAAGUAUUUACCUCCU-GGCUUUUCGAUUAAAGUGAGUACUCUG----CUUUAAUUGCAGUUGUUUCAUUGCGCUGAAUACAUCUUAUGUAUUUCUUGCUCCGCCAAGAGAUG
----...........(((.(-(((...........((((((.((.(((----(.......))))..))))))))(((..((((((((...))))))))..)))...)))).)))... ( -27.90, z-score =  -3.08, R)
>droSec1.super_8 1266502 109 + 3762037
----AAAGUAUUUACCUCCUUGGCUUUUCGAUUAAAGUGAGUACUAUU----CUUUAAUUGGAGUUGUUUCAUUGCGCUGAAUACAUCUUAUGUAUUUCUUGCUCCGCCAAGAGAUG
----...........(((.(((((.((((((((((((...........----))))))))))))..........(((..((((((((...))))))))..)))...))))))))... ( -26.90, z-score =  -2.86, R)
>consensus
____AAAGUAUUUACCUCCUUGGCUUUUCGAUUAAAGUGAGUACUAUA____CUUUAAUUGGAGUUGUUUCAUUGCGCUGAAUACAUCUUAUGUAUUUCUUGCUCCGCCAAGAGAUG
.......(((((((((.....(((.((((((((((((...............))))))))))))..))).....).).)))))))........(((((((((......))))))))) (-16.97 = -17.53 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,975,423 – 18,975,540
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 87.76
Shannon entropy 0.16837
G+C content 0.35692
Mean single sequence MFE -23.67
Consensus MFE -18.13
Energy contribution -18.47
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -2.37
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892975
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18975423 117 - 22422827
CAUCUCUUGGCGGAGCAAGAUAUACUUAAGAUGUAUUCAGCGCAAUGAAACAACUCCAAUAAAAAUCACUAAAGUAAUCACUUUAAUCGAAAAGUCAAGGAGGUAAAUACAUACUUU
.((((((((((((((.(((.....)))....(((.((((......))))))).))))............((((((....))))))........))))).)))))............. ( -21.20, z-score =  -1.91, R)
>droSim1.chrX 14670968 108 - 17042790
CAUCUCUUGGCGGAGCAAGAAAUACAUAAGAUGUAUUCAGCGCAAUGAAACAACUGCAAUUAAAG----CAGAGUACUCACUUUAAUCGAAAAGCC-AGGAGGUAAAUACUUU----
.((((((((((...((....(((((((...)))))))....))..........((((.......)----))).....................)))-))))))).........---- ( -26.30, z-score =  -2.72, R)
>droSec1.super_8 1266502 109 - 3762037
CAUCUCUUGGCGGAGCAAGAAAUACAUAAGAUGUAUUCAGCGCAAUGAAACAACUCCAAUUAAAG----AAUAGUACUCACUUUAAUCGAAAAGCCAAGGAGGUAAAUACUUU----
.((((((((((((((.......(((((...)))))((((......))))....)))).(((((((----...........)))))))......))))).))))).........---- ( -23.50, z-score =  -2.48, R)
>consensus
CAUCUCUUGGCGGAGCAAGAAAUACAUAAGAUGUAUUCAGCGCAAUGAAACAACUCCAAUUAAAG____AAAAGUACUCACUUUAAUCGAAAAGCCAAGGAGGUAAAUACUUU____
.((((((((((((((.......(((.......)))((((......))))....)))).............(((((....))))).........))).)))))))............. (-18.13 = -18.47 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:59:03 2011