Locus 3546

Sequence ID X_DroMel_CAF1
Location 9,494,674 – 9,494,772
Length 98
Max. P 0.893567
window5804

overview

Window 4

Location 9,494,674 – 9,494,772
Length 98
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 91.22
Mean single sequence MFE -18.74
Consensus MFE -16.20
Energy contribution -16.64
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.56
Structure conservation index 0.86
SVM decision value 0.98
SVM RNA-class probability 0.893567
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9494674 98 + 22224390
AAA-UGCGAGGCGAAAUA-AAAAGAAACCAGCUGUUUGAUUACGCGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUACUAAAAACAACAGCUGCUUU
...-..............-.........((((((((.(.......((((.....)))).((((((.....))))))...........))))))))).... ( -15.80)
>DroSec_CAF1 38113 99 + 1
AAAUUGCGAGGUGAAAAA-AACAGAAACCAGCUGUUGGAUUACGCGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUACCAAAAACAGCAACUGUUUU
................((-(((((......((((((((.......((((.....)))).((((((.....))))))....)))...)))))..))))))) ( -17.50)
>DroSim_CAF1 38007 98 + 1
AAA-UGCGAGGUGGAAAA-AACAGAAACCAGCUGUUGGAUUACGCGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUACCAAAAACAACAACUGCUUU
...-.....(((((....-..........((((((........))))))..........((((((.....)))))).))))).................. ( -15.90)
>DroEre_CAF1 38161 99 + 1
AAA-UGCUAGGCGAAAAACAAAAGAAACCAGCUGUUGGAUUACGAGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUAUCAAAACCAACAGCUGCCAU
...-.....(((...........(....)(((((((((.......((((.....)))).((((((.....))))))..........)))))))))))).. ( -24.10)
>DroYak_CAF1 38721 99 + 1
AAA-UGCGAGGCGAAAAACAAAAGAAACCAGCUGUUGGAUUACGAGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUACCAAAGUCAACAGCUGCUAU
...-........................((((((((((.......((((.....))))..(((...(((....)))....)))...)))))))))).... ( -20.40)
>consensus
AAA_UGCGAGGCGAAAAA_AAAAGAAACCAGCUGUUGGAUUACGCGGCUAAAAAAGCUAAUGGAACAUGAUUUCAUACUACCAAAAACAACAGCUGCUUU
............................(((((((((........((((.....)))).((((((.....))))))...........))))))))).... (-16.20 = -16.64 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:04 2006