Locus 1706

Sequence ID 2L_DroMel_CAF1
Location 4,676,596 – 4,676,695
Length 99
Max. P 0.995693
window2736 window2737

overview

Window 6

Location 4,676,596 – 4,676,695
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 97.44
Mean single sequence MFE -30.35
Consensus MFE -28.10
Energy contribution -28.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.14
Structure conservation index 0.93
SVM decision value 0.60
SVM RNA-class probability 0.794194
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4676596 99 + 22407834
CCGCCCAAAUCAAUGGCUAAUGAAGCGCACGGAGCGCAGGUGAUUGCAGCCGAAUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAGCAGCUU
((((((......(((((.......((((.....)))).(((.......)))....))))).........(....))))))).((((....))))..... ( -29.10)
>DroSec_CAF1 105298 99 + 1
CCGCCCAAAUUAAUGGCUAAUGAAGCGCACGGAGCGCAGGUGAUUGCAGCCGAGUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAGCAGCUU
((((((..((...(((((......((((.(((...((((....))))..))).))))......)))))...))..)))))).((((....))))..... ( -31.90)
>DroSim_CAF1 97074 99 + 1
CCGCCCAAAUUAAUGGCUAAUGAAGCGCACGGAGCGCAGGUGAUUGCAGCCGAGUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAGCAGCUU
((((((..((...(((((......((((.(((...((((....))))..))).))))......)))))...))..)))))).((((....))))..... ( -31.90)
>DroEre_CAF1 108974 99 + 1
CCGCCCAAAUUAAUGGCUAAUGAAGCGCACGGAGCGCAGGUGAUUGCAGCCGAGUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCUAGCAGCUU
((((((..((...(((((......((((.(((...((((....))))..))).))))......)))))...))..)))))).(((......)))..... ( -31.30)
>DroYak_CAF1 109348 99 + 1
CCGCCCAAAUUAAUGGCUAAUGAAGCGCACAGAGCGCAGGUGAUUGCAGCCGAGUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAGCAGCUU
((((((..((...(((((......((((.....)))).(((..(((....)))..))).....)))))...))..)))))).((((....))))..... ( -29.10)
>DroAna_CAF1 104217 99 + 1
CCGCCCAAAUUAAUGGCUAAUGAAGCGCAAGGAGCGCAGGUGAUUGCAGCCGAAUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAAAAGCUU
((((((......(((((.......((((.....)))).(((.......)))....))))).........(....)))))))(((((.......))))). ( -28.80)
>consensus
CCGCCCAAAUUAAUGGCUAAUGAAGCGCACGGAGCGCAGGUGAUUGCAGCCGAGUGCCAUAAAAGUCAAGUAUCCGGGCGGAGUUUAACCGAGCAGCUU
((((((......(((((.......((((.....)))).(((.......)))....))))).........(....))))))).................. (-28.10 = -28.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,676,596 – 4,676,695
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 97.44
Mean single sequence MFE -30.86
Consensus MFE -30.59
Energy contribution -30.65
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.43
Structure conservation index 0.99
SVM decision value 2.60
SVM RNA-class probability 0.995693
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4676596 99 - 22407834
AAGCUGCUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCAUUCGGCUGCAAUCACCUGCGCUCCGUGCGCUUCAUUAGCCAUUGAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) ( -31.00)
>DroSec_CAF1 105298 99 - 1
AAGCUGCUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCACUCGGCUGCAAUCACCUGCGCUCCGUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) ( -31.40)
>DroSim_CAF1 97074 99 - 1
AAGCUGCUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCACUCGGCUGCAAUCACCUGCGCUCCGUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) ( -31.40)
>DroEre_CAF1 108974 99 - 1
AAGCUGCUAGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCACUCGGCUGCAAUCACCUGCGCUCCGUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) ( -31.00)
>DroYak_CAF1 109348 99 - 1
AAGCUGCUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCACUCGGCUGCAAUCACCUGCGCUCUGUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) ( -32.30)
>DroAna_CAF1 104217 99 - 1
AAGCUUUUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCAUUCGGCUGCAAUCACCUGCGCUCCUUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.((.....))))...(((((.........((((.....)))).....)))))....)))))))))) ( -28.04)
>consensus
AAGCUGCUCGGUUAAACUCCGCCCGGAUACUUGACUUUUAUGGCACUCGGCUGCAAUCACCUGCGCUCCGUGCGCUUCAUUAGCCAUUAAUUUGGGCGG
.((((....)))).....((((((((((...((.........((((..(((.(((......))))))..))))(((.....)))))...)))))))))) (-30.59 = -30.65 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:03 2006