Locus 6611

Sequence ID 2R_DroMel_CAF1
Location 20,703,325 – 20,703,445
Length 120
Max. P 0.814770
window10521

overview

Window 1

Location 20,703,325 – 20,703,445
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.75
Mean single sequence MFE -17.92
Consensus MFE -15.42
Energy contribution -15.46
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.46
Structure conservation index 0.86
SVM decision value 0.66
SVM RNA-class probability 0.814770
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20703325 120 + 20766785
AAACUCAGACAAGGAGACUAUCAAAGAAAAAAAUUACAUAACAAACACAUGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUCUUUAGCCAUGUAAUAAAUGAUCCAUGUAAUUGA
...((..((..((....)).))..)).....((((((((..........((((..........)))).(((((..((((..(((.......))).)))).....)).))))))))))).. ( -19.80)
>DroSec_CAF1 136932 120 + 1
AAAUUCAGACAAGGAGACUAUCAAAGAAAAAAAUUACAUAACAAACACACGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUCUUUAGCCAUGUAAUAAAUGAUCCAUGUAAUUGA
.......((..((....)).)).........((((((((...........(((..........)))..(((((..((((..(((.......))).)))).....)).))))))))))).. ( -18.90)
>DroSim_CAF1 140567 120 + 1
AAAUUCAGACAAGGAGACUAUCAAAGAAAAAAAUUACAUAACAAACACACGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUCUUUAGCUAUGUAAUAAAUGAUCCAUGUAAUUGA
.......((..((....)).)).........((((((((...........(((..........)))..(((((..((((.((.(......).)).)))).....)).))))))))))).. ( -18.00)
>DroEre_CAF1 177684 119 + 1
AAAUCCAGUCAAGAAGACUAUCAAAGAAA-AAAUUACAUAACAAACACACGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUUCUUAGCCAUGUAAUAAAUGAUCCAUGUAAUUGA
......((((.....))))..........-.((((((((...........(((..........)))..(((((..((((..((.((....)))).)))).....)).))))))))))).. ( -19.50)
>DroYak_CAF1 142400 117 + 1
AAAUGCAGU---GAAGACUAUUAAAGAAAAAAAGUACAUAACAAACACACGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUCUUUAGCCAUGUAAUAAAUGAUCCAUGUAAUUGA
.........---......................(((((...........(((..........)))..(((((..((((..(((.......))).)))).....)).))))))))..... ( -13.40)
>consensus
AAAUUCAGACAAGGAGACUAUCAAAGAAAAAAAUUACAUAACAAACACACGGCACCAUCAACAGCCAAGGACAGAUACAAAGGUCUCUUUAGCCAUGUAAUAAAUGAUCCAUGUAAUUGA
...............................((((((((...........(((..........)))..(((((..((((..(((.......))).)))).....)).))))))))))).. (-15.42 = -15.46 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:03 2006