Locus 4835

Sequence ID X_DroMel_CAF1
Location 12,556,141 – 12,556,251
Length 110
Max. P 0.881381
window7902 window7903

overview

Window 2

Location 12,556,141 – 12,556,251
Length 110
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 92.38
Mean single sequence MFE -21.88
Consensus MFE -16.82
Energy contribution -16.46
Covariance contribution -0.36
Combinations/Pair 1.11
Mean z-score -1.59
Structure conservation index 0.77
SVM decision value 0.08
SVM RNA-class probability 0.571666
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12556141 110 + 22224390
UCAAACGCACAGUCAGCGC-UGCAAAUUGUUGUUUAAGCUUACUCAAAUUACGAGAUAUCAGCAAAAAUGCUGAAAUUGUGAUGAGAAAUAAAUGGAAAAAAGAAAUCUGA
.........(((....(((-(..((((....)))).)))...((((..((((((....((((((....))))))..))))))))))................)....))). ( -21.00)
>DroSec_CAF1 19885 110 + 1
UCAAACGUACAGUCAGCGC-UGCGAAUUGUUGUUUAAGUUUACUCAAAUUACGAGAUAUCAGCAAAAAUGCUGAAAUUGUGAUGAGAAAUAAAUGGGAAAAAGAAAUCUGA
..(((((.(((((..((..-.))..))))))))))..((((.((((..((((((....((((((....))))))..))))))))))))))..................... ( -22.60)
>DroSim_CAF1 18189 110 + 1
UCAAACGCACAGUCAGCGC-UGCGAAUUGUUGUUUAAGUUUACUCAAAUUACGAGAUAUCAGCAAAAAUGCUGAAAUUGUGAUGAGAAAUAAAUGGGAAAAAGAAAUCUGA
..(((((.(((((..((..-.))..))))))))))..((((.((((..((((((....((((((....))))))..))))))))))))))..................... ( -22.60)
>DroEre_CAF1 20987 108 + 1
UCAAACGCAAAGUCAGCGU-UGGAAAUUGUUAUUUAAGUCUACUCAAAUUACGAGAUAUCAGCAA-AAUGCUGAAAUUGUUAUGAGAAAUAAAUGGGAA-AGGAAAUCUGA
((.(((((.......))))-).))..((.(((((((..(((.(((.......)))...(((((..-...)))))..........)))..))))))).))-........... ( -21.20)
>DroYak_CAF1 11701 109 + 1
UCAAACGCAACGUCAGCGCGUAGAAAUUGUUAUUUAAGUCUACUCAAAUUGCGAGAUAUCAGCAA-AAUGCUGAAAUUGUGAUGAGAAAUAAAUGGGAA-AGGAAAUCUGA
.....(((((..((((((.(((((..(((.....))).))))).)...((((((....)).))))-...)))))..)))))..................-........... ( -22.00)
>consensus
UCAAACGCACAGUCAGCGC_UGCAAAUUGUUGUUUAAGUUUACUCAAAUUACGAGAUAUCAGCAAAAAUGCUGAAAUUGUGAUGAGAAAUAAAUGGGAAAAAGAAAUCUGA
.....(((.......)))........((.(((((((......((((..((((((....((((((....))))))..))))))))))...))))))).))............ (-16.82 = -16.46 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,556,141 – 12,556,251
Length 110
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 92.38
Mean single sequence MFE -18.86
Consensus MFE -16.14
Energy contribution -16.22
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.86
SVM decision value 0.92
SVM RNA-class probability 0.881381
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12556141 110 - 22224390
UCAGAUUUCUUUUUUCCAUUUAUUUCUCAUCACAAUUUCAGCAUUUUUGCUGAUAUCUCGUAAUUUGAGUAAGCUUAAACAACAAUUUGCA-GCGCUGACUGUGCGUUUGA
((((((...............................((((((....))))))......((..((((((....))))))..))........-((((.....)))))))))) ( -20.20)
>DroSec_CAF1 19885 110 - 1
UCAGAUUUCUUUUUCCCAUUUAUUUCUCAUCACAAUUUCAGCAUUUUUGCUGAUAUCUCGUAAUUUGAGUAAACUUAAACAACAAUUCGCA-GCGCUGACUGUACGUUUGA
((((((...............................((((((....))))))......((..((((((....))))))..)).....(((-(......))))..)))))) ( -17.20)
>DroSim_CAF1 18189 110 - 1
UCAGAUUUCUUUUUCCCAUUUAUUUCUCAUCACAAUUUCAGCAUUUUUGCUGAUAUCUCGUAAUUUGAGUAAACUUAAACAACAAUUCGCA-GCGCUGACUGUGCGUUUGA
((((((...............................((((((....))))))......((..((((((....))))))..))........-((((.....)))))))))) ( -19.90)
>DroEre_CAF1 20987 108 - 1
UCAGAUUUCCU-UUCCCAUUUAUUUCUCAUAACAAUUUCAGCAUU-UUGCUGAUAUCUCGUAAUUUGAGUAGACUUAAAUAACAAUUUCCA-ACGCUGACUUUGCGUUUGA
...........-.........................(((((...-..)))))......((.(((((((....))))))).))....((.(-((((.......))))).)) ( -18.60)
>DroYak_CAF1 11701 109 - 1
UCAGAUUUCCU-UUCCCAUUUAUUUCUCAUCACAAUUUCAGCAUU-UUGCUGAUAUCUCGCAAUUUGAGUAGACUUAAAUAACAAUUUCUACGCGCUGACGUUGCGUUUGA
...........-..............(((.(.((((.(((((...-.(((.((....)))))(((((((....)))))))..............))))).)))).)..))) ( -18.40)
>consensus
UCAGAUUUCUUUUUCCCAUUUAUUUCUCAUCACAAUUUCAGCAUUUUUGCUGAUAUCUCGUAAUUUGAGUAAACUUAAACAACAAUUUGCA_GCGCUGACUGUGCGUUUGA
.....................................((((((....))))))......((..((((((....))))))..))......((.((((.......)))).)). (-16.14 = -16.22 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:13 2006