Locus 4832

Sequence ID X_DroMel_CAF1
Location 12,549,223 – 12,549,327
Length 104
Max. P 0.550412
window7898

overview

Window 8

Location 12,549,223 – 12,549,327
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 82.87
Mean single sequence MFE -24.46
Consensus MFE -14.52
Energy contribution -15.94
Covariance contribution 1.42
Combinations/Pair 1.17
Mean z-score -1.91
Structure conservation index 0.59
SVM decision value 0.03
SVM RNA-class probability 0.550412
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12549223 104 + 22224390
GCGAAAGGAGAGGAAGACAGCAGAUUAUUAAAUUAUUGUCCAAAUGGGCAAUGGAAACGCGGGCAAUGAGGCAUUUCUACGAUGGAAGGAAGCGAAUCUUGCAA
.(....)............(((((((......(((((((((....)))))))))...(((..((......)).(((((.....)))))...))))))).))).. ( -24.20)
>DroSec_CAF1 13200 104 + 1
GCGAAAGGAGAGGAAGACAGCAGAUUAUUAAAUUAUUGUCCAAGUGGGCAAUGGAAACGCGGGCAGUGAGGCAUUUCUACGAAGGAAGGAAGCGAAUCUCUCAA
.(....)((((((...................(((((((((....)))))))))...(((..((......)).(((((.(....).))))))))..)))))).. ( -28.60)
>DroSim_CAF1 11372 104 + 1
GCGAAAGGAGAGGAAGACAGCAGAUUAUUAAAUUAUUGUCCAAGUGGGCAAUGGAAACGCGGGCAGUGAGGCAUUUCUACGAAGGAAGGAAGCGAAUCUCUCAA
.(....)((((((...................(((((((((....)))))))))...(((..((......)).(((((.(....).))))))))..)))))).. ( -28.60)
>DroEre_CAF1 14257 81 + 1
GCGAAAGGAGAGGAACACAGCAGAUUAUUAAAUUAUUGUCCAAAUGG----------------------GGCAU-GCAACGAAGGAAGGAAACGAAUUUCUCAC
.(....)..((((((....(((((((....))))..(((((.....)----------------------)))))-))..........(....)...)))))).. ( -16.20)
>DroYak_CAF1 4417 103 + 1
GCGAAAGGAGAGGAACACAGCAGAUUAUUAAAUUAUUGUUCAAAUGGGCAACGGAAACGUGAGCGAUGUGGCAU-UCAGCGAAGGAAGGAAACGCAUUUCUCAG
.(....)..((((((((((((...............(((((....)))))(((....)))..))..))))((..-....(....)..(....))).)))))).. ( -24.70)
>consensus
GCGAAAGGAGAGGAAGACAGCAGAUUAUUAAAUUAUUGUCCAAAUGGGCAAUGGAAACGCGGGCAAUGAGGCAUUUCUACGAAGGAAGGAAGCGAAUCUCUCAA
.(....)((((((......((..............((((((....))))))((....))...........)).(((((.(....).))))).....)))))).. (-14.52 = -15.94 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:08 2006