Locus 130

Sequence ID sp_mu.0
Location 722,198 – 722,316
Length 118
Max. P 0.909808
window823 window824

overview

Window 3

Location 722,198 – 722,315
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.35
Mean single sequence MFE -23.97
Consensus MFE -19.62
Energy contribution -20.30
Covariance contribution 0.68
Combinations/Pair 1.18
Mean z-score -2.03
Structure conservation index 0.82
SVM decision value 1.00
SVM RNA-class probability 0.898445
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 722198 117 - 2030921/0-120
GUGUACUGACCCC--AAAAAGUUAGACAAAAAAU-UUAAGUAAAGGAUUUCGUUCUGUACUGUACAGGACUAAGUCCUUUUAGUUUUACCUUAAUACGUUUGUUGUUGUAAUAAUCAAUA
.....(((((...--.....)))))(((((....-(((((.(((((((((.((((((((...)))))))).))))))))).........)))))....)))))(((((.......))))) ( -26.10)
>sp_ag.0 893897 118 - 2160267/0-120
UUGUACUGACCCC--AAAAAGUUAGACAAAAAAUAUUAUUGAAAGGAUUUAAUUCUAUACUGAACAGGACUAAGUCCUUUUAGUUUUUCUUUAAUGCAUUUAUUGUUGUAGUAAAAAAUA
((((.(((((...--.....)))))))))........((((((((((((((.((((.........)))).)))))))))))))).....((((.((((........)))).))))..... ( -24.00)
>sp_pn.0 876248 118 + 2038615/0-120
UUGUACUGCCCCCCAAAAAAGUUAGACAAUUAAU-UUAUCCGAAG-AUUUAGUUCUGUAUUGCACAGAGCUAAGUCCUUUUAGUUUUAUCUUAAUUCUCUUAUUGUUGUAAUAAUCAAUA
.............(((...(((.(((.((((((.-.((.(..(((-((((((((((((.....)))))))))))))..))..)...))..)))))).))).))).)))............ ( -21.80)
>consensus
UUGUACUGACCCC__AAAAAGUUAGACAAAAAAU_UUAUCCAAAGGAUUUAGUUCUGUACUGAACAGGACUAAGUCCUUUUAGUUUUACCUUAAUACAUUUAUUGUUGUAAUAAUCAAUA
.(((.(((((..........)))))))).............(((((((((((((((((.....))))))))))))))))).....((((..((((......))))..))))......... (-19.62 = -20.30 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 722,198 – 722,316
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.73
Mean single sequence MFE -24.20
Consensus MFE -19.07
Energy contribution -19.87
Covariance contribution 0.79
Combinations/Pair 1.23
Mean z-score -1.96
Structure conservation index 0.79
SVM decision value 1.07
SVM RNA-class probability 0.909808
Prediction RNA

Download alignment: ClustalW | MAF

>sp_mu.0 722198 118 - 2030921/14-134
-AAAAAGUUAGACAAAAAAU-UUAAGUAAAGGAUUUCGUUCUGUACUGUACAGGACUAAGUCCUUUUAGUUUUACCUUAAUACGUUUGUUGUUGUAAUAAUCAAUAUAGUCUACAAUAGC
-.....((.((((..(((((-(.....(((((((((.((((((((...)))))))).))))))))).))))))................(((((.......)))))..))))))...... ( -26.00)
>sp_ag.0 893897 119 - 2160267/14-134
-AAAAAGUUAGACAAAAAAUAUUAUUGAAAGGAUUUAAUUCUAUACUGAACAGGACUAAGUCCUUUUAGUUUUUCUUUAAUGCAUUUAUUGUUGUAGUAAAAAAUAUACUCGGUGAUAGC
-.....((((((.((((......((((((((((((((.((((.........)))).)))))))))))))))))).))))))....((((..(((.((((.......)))))))..)))). ( -23.00)
>sp_pn.0 876248 118 + 2038615/14-134
AAAAAAGUUAGACAAUUAAU-UUAUCCGAAG-AUUUAGUUCUGUAUUGCACAGAGCUAAGUCCUUUUAGUUUUAUCUUAAUUCUCUUAUUGUUGUAAUAAUCAAUAUAGUCUAUAAUGGC
........(((((((((((.-.((.(..(((-((((((((((((.....)))))))))))))..))..)...))..)))))).......(((((.......)))))..)))))....... ( -23.60)
>consensus
_AAAAAGUUAGACAAAAAAU_UUAUCCAAAGGAUUUAGUUCUGUACUGAACAGGACUAAGUCCUUUUAGUUUUACCUUAAUACAUUUAUUGUUGUAAUAAUCAAUAUAGUCUAUAAUAGC
........(((((..............(((((((((((((((((.....))))))))))))))))).....((((..((((......))))..))))...........)))))....... (-19.07 = -19.87 +   0.79)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 19:02:04 2006