Locus 2129

Sequence ID X_DroMel_CAF1
Location 5,779,192 – 5,779,325
Length 133
Max. P 0.962818
window3459 window3460

overview

Window 9

Location 5,779,192 – 5,779,300
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.68
Mean single sequence MFE -22.99
Consensus MFE -18.07
Energy contribution -18.82
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.79
SVM decision value 0.18
SVM RNA-class probability 0.620365
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5779192 108 - 22224390
AUAAUCCCGCGACAUAAAACGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGGAGCGGAAAAAGGAGUGGGGCUGAUAUAAAA------------AGUGUA
.((..(((((..(......((((((((.............)))))))).(((((...(((..((.....))..)))))))).)..)))))..))........------------...... ( -26.22)
>DroSec_CAF1 46758 108 - 1
AUAAUCCCGCGACAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGAAACGGAAAAAGGAGUGGGUCUGAUAUAAAA------------AGUAUA
.....(((((..(...(((((((((((.............)))))))))))(((((...((...))..))))).........)..)))))............------------...... ( -24.32)
>DroEre_CAF1 47783 106 - 1
AUAAUCCCGCGGCAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAACGGAACGGAAAAAGGAGUGGCGCUGAUA--AAA------------AAUAUA
.......((((....((((((((((((.............)))))))))))).....)))).((((..((....(.......)..))..)).))...--...------------...... ( -23.62)
>DroYak_CAF1 51075 118 - 1
AUAAUCCCGCGGCAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGCUUUUCAUACUCGACACGAAAUGGAACGGAAAAAGGAGUGGUGCUGAUA--AUAAAAAAGAAAGAGAAUAUA
.........((((((...(((((((((.............))))))).(.((((((..(((...))).)))))).)......))....))))))...--..................... ( -17.82)
>consensus
AUAAUCCCGCGACAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGGAACGGAAAAAGGAGUGGGGCUGAUA__AAA____________AAUAUA
....(((((((....((((((((((((.............)))))))))))).....))))...((........))......)))................................... (-18.07 = -18.82 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,779,220 – 5,779,325
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.51
Mean single sequence MFE -26.02
Consensus MFE -23.39
Energy contribution -23.72
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.90
SVM decision value 1.54
SVM RNA-class probability 0.962818
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5779220 105 - 22224390
GACCUCACCUCAGCG---------------ACAAAAAGGGAUAAUCCCGCGACAUAAAACGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGGAGCGGAAA
..((.(.((....((---------------.......(((.....)))(((....((((((((((((.............))))))).)))))....)))....))....)).).))... ( -23.62)
>DroSec_CAF1 46786 105 - 1
GACCUCACCGCGGCG---------------ACAAAAAGGGAUAAUCCCGCGACAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGAAACGGAAA
.......(((...((---------------.......(((.....)))(((....((((((((((((.............)))))))))))).....))).........))...)))... ( -27.02)
>DroEre_CAF1 47809 120 - 1
GACCUCACCUUGGCAGAAAAAAAAAGAAAAAAAAAAAGGGAUAAUCCCGCGGCAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAACGGAACGGAAA
..((...((............................(((.....)))(((....((((((((((((.............)))))))))))).....)))..........))...))... ( -27.42)
>consensus
GACCUCACCUCGGCG_______________ACAAAAAGGGAUAAUCCCGCGACAUAAACCGAUUUCGGAAUUAACUCAAACGAAAUUGGUUUUCAUACGCGACACGAAAUGGAACGGAAA
.......((............................(((.....)))(((....((((((((((((.............)))))))))))).....)))...............))... (-23.39 = -23.72 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:57 2006