Locus 2848

Sequence ID 2L_DroMel_CAF1
Location 8,163,101 – 8,163,206
Length 105
Max. P 0.995025
window4528 window4529

overview

Window 8

Location 8,163,101 – 8,163,206
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 92.38
Mean single sequence MFE -27.49
Consensus MFE -22.58
Energy contribution -22.98
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -1.36
Structure conservation index 0.82
SVM decision value 0.11
SVM RNA-class probability 0.588966
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8163101 105 + 22407834
GGUCGUGCGUCCGGUGCUCCGCUAAAAGUAACAAAAAGUGCACAAAUUGCCGGGAGAAAAUGUUACAUUAACGAUAUUUUCGGUUAAUGCUGAGCACACGGAUAC
........(((((((((((.((.....((((((......(((.....)))(....)....))))))((((((((.....)).)))))))).)))))).))))).. ( -31.70)
>DroSec_CAF1 3024 105 + 1
GGUUGUGUGUCCGGUGCUCCGCUAAAAGUAACAAAAAGUGCACAAAUUGCCGGGAGAAAAUGUUACAUUAACGAUAUUUUCGGUUAAUGCUAAGCACACGGAUAC
......((((((((((((..((.....((((((......(((.....)))(....)....))))))((((((((.....)).))))))))..))))).))))))) ( -30.80)
>DroSim_CAF1 3023 105 + 1
GGUUGUGCGUCCGGUGCUCCGCUAAAAGUAACAAAAAGUGCACAAAUUGCCGGGAGAAAAUGUUACAUUAACGAUAUUUUCGGUUAAUGCUAAGCACACGGAUAC
........((((((((((..((.....((((((......(((.....)))(....)....))))))((((((((.....)).))))))))..))))).))))).. ( -28.10)
>DroEre_CAF1 3514 105 + 1
GUACUCGCGUUCGGUGCUCCGCUAAAAGUAACAAAAAGUGCAUAAGUUGCCGGGAGAAAAUGUUACAUUAACGAUAUUUUCGGUUUCUACUGAGUACACGGAUAC
........(((((((((((((((.............))))....((..((((..((....(((((...)))))...))..))))..))...)))))).))))).. ( -23.52)
>DroYak_CAF1 3083 105 + 1
GUUCGUGCGUUCGGUGCUCCGCUAAAAGUAACAAAAAGUGCACAAAUUGCCGGGAAAAAAUGUUACAUUAGCGAUAUUUUCUGUUUCUGCUAAGCACACGGAUAC
(((((((.(((..((.....(((((..((((((....(.(((.....)))).........)))))).)))))((.....)).......))..))).))))))).. ( -23.32)
>consensus
GGUCGUGCGUCCGGUGCUCCGCUAAAAGUAACAAAAAGUGCACAAAUUGCCGGGAGAAAAUGUUACAUUAACGAUAUUUUCGGUUAAUGCUAAGCACACGGAUAC
........((((((((((..((......((((.....(.(((.....))))....(((((((((........))))))))).))))..))..))))).))))).. (-22.58 = -22.98 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,163,101 – 8,163,206
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 92.38
Mean single sequence MFE -27.11
Consensus MFE -24.45
Energy contribution -24.49
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -1.92
Structure conservation index 0.90
SVM decision value 2.53
SVM RNA-class probability 0.995025
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8163101 105 - 22407834
GUAUCCGUGUGCUCAGCAUUAACCGAAAAUAUCGUUAAUGUAACAUUUUCUCCCGGCAAUUUGUGCACUUUUUGUUACUUUUAGCGGAGCACCGGACGCACGACC
(..((((.((((((.((((((((.((.....))))))))((((((..........(((.....)))......)))))).....)).))))))))))..)...... ( -31.89)
>DroSec_CAF1 3024 105 - 1
GUAUCCGUGUGCUUAGCAUUAACCGAAAAUAUCGUUAAUGUAACAUUUUCUCCCGGCAAUUUGUGCACUUUUUGUUACUUUUAGCGGAGCACCGGACACACAACC
((.((((.((((((.((((((((.((.....))))))))((((((..........(((.....)))......)))))).....)).)))))))))).))...... ( -29.29)
>DroSim_CAF1 3023 105 - 1
GUAUCCGUGUGCUUAGCAUUAACCGAAAAUAUCGUUAAUGUAACAUUUUCUCCCGGCAAUUUGUGCACUUUUUGUUACUUUUAGCGGAGCACCGGACGCACAACC
(..((((.((((((.((((((((.((.....))))))))((((((..........(((.....)))......)))))).....)).))))))))))..)...... ( -30.09)
>DroEre_CAF1 3514 105 - 1
GUAUCCGUGUACUCAGUAGAAACCGAAAAUAUCGUUAAUGUAACAUUUUCUCCCGGCAACUUAUGCACUUUUUGUUACUUUUAGCGGAGCACCGAACGCGAGUAC
........((((((.................(((((((.((((((..........(((.....)))......))))))..))))))).((.......)))))))) ( -21.29)
>DroYak_CAF1 3083 105 - 1
GUAUCCGUGUGCUUAGCAGAAACAGAAAAUAUCGCUAAUGUAACAUUUUUUCCCGGCAAUUUGUGCACUUUUUGUUACUUUUAGCGGAGCACCGAACGCACGAAC
(..(.((.((((((.(......).........((((((.((((((..........(((.....)))......))))))..)))))))))))))).)..)...... ( -22.99)
>consensus
GUAUCCGUGUGCUUAGCAUUAACCGAAAAUAUCGUUAAUGUAACAUUUUCUCCCGGCAAUUUGUGCACUUUUUGUUACUUUUAGCGGAGCACCGGACGCACGACC
((.((((.((((((..........((.....))(((((.((((((..........(((.....)))......))))))..))))).)))))))))).))...... (-24.45 = -24.49 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:48 2006