Locus 4093

Sequence ID X_DroMel_CAF1
Location 10,794,177 – 10,794,271
Length 94
Max. P 0.898262
window6727 window6728

overview

Window 7

Location 10,794,177 – 10,794,271
Length 94
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 86.36
Mean single sequence MFE -24.18
Consensus MFE -15.73
Energy contribution -16.04
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -2.86
Structure conservation index 0.65
SVM decision value 1.00
SVM RNA-class probability 0.898262
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10794177 94 + 22224390
UCUUGCGCCAAUUGCAAUUUUUGGCAUAGCAAUUAUUUUGUAU----------------GCGACUUUACUUCGCGUAAAUAGAAAAAUAAUUGCAUUAAUUGCGUGAAUA
((.((((((((.........)))))...(((((((((((.(((----------------((((.......)))))))......))))))))))).......))).))... ( -28.00)
>DroSec_CAF1 10640 110 + 1
UCUUGCACCAAUUGCAAUUUUUGGCAUAGCAAUUAUUUUGUAUACCAAGCGUUUUGCUUGCCACUUUACUUCACGUAAAUACAAAAAUAAUUGCAUUAAUUGCGUGAAUA
.....((((((((((........))...(((((((((((((((..(((((.....))))).....((((.....)))))))).)))))))))))...))))).))).... ( -26.40)
>DroEre_CAF1 16901 110 + 1
UCUUGCACCAAUUGCAAAUUUUGGCAUAGCAAUUAUUUUGUACACCACUUAUUUUGUAUGCCACUUUACUUCACGUAAAUAGAAAAAUAAUUGCAUUAAUUGCGUGAAUA
.....((((((((((........))...((((((((((((((((..........))))).....(((((.....)))))....)))))))))))...))))).))).... ( -20.50)
>DroYak_CAF1 17073 110 + 1
UCUUGCACCAAUUGCAAAUUUUGGCAUAGCAAUUAUUUUGUAUAGCAAUUAUUUUGUAUGCCACUUUAGCACACGUAAAUAGAAAAAUAAUUGCAUUAAUUGCGUGAAUA
.....((((((((((........))...((((((((((((.....)..(((((((((.(((.......))).))).)))))).)))))))))))...))))).))).... ( -21.80)
>consensus
UCUUGCACCAAUUGCAAAUUUUGGCAUAGCAAUUAUUUUGUAUACCAAUUAUUUUGUAUGCCACUUUACUUCACGUAAAUAGAAAAAUAAUUGCAUUAAUUGCGUGAAUA
.....((((((((((........))...((((((((((((((................)))...(((((.....)))))....)))))))))))...))))).))).... (-15.73 = -16.04 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 10,794,177 – 10,794,271
Length 94
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 86.36
Mean single sequence MFE -24.00
Consensus MFE -15.50
Energy contribution -15.81
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -2.57
Structure conservation index 0.65
SVM decision value 0.74
SVM RNA-class probability 0.838942
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10794177 94 - 22224390
UAUUCACGCAAUUAAUGCAAUUAUUUUUCUAUUUACGCGAAGUAAAGUCGC----------------AUACAAAAUAAUUGCUAUGCCAAAAAUUGCAAUUGGCGCAAGA
.......((.......(((((((((((..(((....((((.......))))----------------))).)))))))))))...(((((.........))))))).... ( -20.30)
>DroSec_CAF1 10640 110 - 1
UAUUCACGCAAUUAAUGCAAUUAUUUUUGUAUUUACGUGAAGUAAAGUGGCAAGCAAAACGCUUGGUAUACAAAAUAAUUGCUAUGCCAAAAAUUGCAAUUGGUGCAAGA
..((((((.....(((((((......)))))))..))))))......((((((((((.....(((.....))).....))))).)))))....(((((.....))))).. ( -27.80)
>DroEre_CAF1 16901 110 - 1
UAUUCACGCAAUUAAUGCAAUUAUUUUUCUAUUUACGUGAAGUAAAGUGGCAUACAAAAUAAGUGGUGUACAAAAUAAUUGCUAUGCCAAAAUUUGCAAUUGGUGCAAGA
.......(((.(((((((((...........(((((.....))))).((((((((((......((.....))......))).)))))))....)))).)))))))).... ( -22.60)
>DroYak_CAF1 17073 110 - 1
UAUUCACGCAAUUAAUGCAAUUAUUUUUCUAUUUACGUGUGCUAAAGUGGCAUACAAAAUAAUUGCUAUACAAAAUAAUUGCUAUGCCAAAAUUUGCAAUUGGUGCAAGA
.......(((((((..(((((((((((.........(((((((.....)))))))))))))))))).........)))))))..........((((((.....)))))). ( -25.30)
>consensus
UAUUCACGCAAUUAAUGCAAUUAUUUUUCUAUUUACGUGAAGUAAAGUGGCAUACAAAAUAAUUGGUAUACAAAAUAAUUGCUAUGCCAAAAAUUGCAAUUGGUGCAAGA
.......((.......(((((((((((....(((((.....)))))(((...................))))))))))))))...(((((.........))))))).... (-15.50 = -15.81 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:11 2006