Locus 3896

Sequence ID 2R_DroMel_CAF1
Location 12,865,613 – 12,865,733
Length 120
Max. P 0.583787
window6291

overview

Window 1

Location 12,865,613 – 12,865,733
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.39
Mean single sequence MFE -26.82
Consensus MFE -22.65
Energy contribution -23.53
Covariance contribution 0.88
Combinations/Pair 1.03
Mean z-score -1.88
Structure conservation index 0.84
SVM decision value 0.10
SVM RNA-class probability 0.583787
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12865613 120 + 20766785
UUAAGCACAACAAUUUGUGUUAAUCAACACAGGACCCGCAAACAGGAGUAAAUGGCAUUAACAUAAAUUUGUUUCUAGUAAUUUAUUUAGUGCGACAAAAGCACUUCCUGACCAACACGC
...(((((((....)))))))........(((((...........((((((((.((...((((......))))....)).))))))))(((((.......)))))))))).......... ( -25.60)
>DroSim_CAF1 220893 120 + 1
UUAAGCACAACAAUUUGCGUUAAUCAACACAGGACCCGCAACCAGGAGUAAAUGGCAUUAACAUAAAUUAGUUUCUAGUAAUUUAUUUAGUGCGACAAAAGCACUUCCUGGCCAACACGC
....((........(((((....((.......))..)))))((((((((...(.(((((((.((((((((.(....).))))))))))))))).).......)).)))))).......)) ( -23.80)
>DroEre_CAF1 213017 120 + 1
UUAAGCACAACAAUUUGUGUUAAUCAACACCGGACCCGCAACCAGGAGUAAAUGGCAUUAACAUAAAUUUGUUUCUAGUAAUUUAUUUAGUGCGACAAAAGCACUUCCUGGGCAACACGC
...(((((((....)))))))................((..((((((((((((.((...((((......))))....)).))))))..(((((.......)))))))))))))....... ( -27.60)
>DroYak_CAF1 219018 120 + 1
UUAAGCACAACAAUUUGUGUUAAUCAACACGGGAGCCGCAGCCAGGAGUAAAUGGCAUUAACAUAAAUUUGUUUCUAGUAAUUUAUUUAGUGCGACAAAAGCACUUCCUGGCCAACACGC
...(((((((....)))))))........(((...)))..(((((((((((((.((...((((......))))....)).))))))..(((((.......))))))))))))........ ( -30.30)
>consensus
UUAAGCACAACAAUUUGUGUUAAUCAACACAGGACCCGCAACCAGGAGUAAAUGGCAUUAACAUAAAUUUGUUUCUAGUAAUUUAUUUAGUGCGACAAAAGCACUUCCUGGCCAACACGC
....((.......((((((((....))))))))........((((((((((((.((...((((......))))....)).))))))..(((((.......))))))))))).......)) (-22.65 = -23.53 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:42 2006