Locus 8389

Sequence ID X_DroMel_CAF1
Location 20,823,284 – 20,823,394
Length 110
Max. P 0.776387
window13777

overview

Window 7

Location 20,823,284 – 20,823,394
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.87
Mean single sequence MFE -31.08
Consensus MFE -27.69
Energy contribution -28.50
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 0.54
SVM RNA-class probability 0.776387
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20823284 110 + 22224390
----------AAACGGACAGCGGACAAAAACGGACACCGAUGCCGUCUGCGACUCCGACGAGAUAUUUAAAUCAGGCGAACAGACCAAGGAGCAGAUAUAUGCUUUAUAACUGUGUGCCA
----------...((((..((((((.....(((...))).....))))))...))))....(((......))).((((.((((.....((((((......))))))....)))).)))). ( -33.50)
>DroSec_CAF1 523 119 + 1
A-GCGGACAAAAACGGACAGCGGACAAAAACGGACACCGAUGCCGUCUGCGACUCCGACGAGAUAUUUAAAUCAGGGGAACAGACCAAGGAGUAGAUAUAUGCUUUAUAACUAUGUGCCA
.-..(((((....((((..((((((.....(((...))).....))))))...))))..(..(((((((..((..((.......))..))..)))))))...)..........))).)). ( -27.90)
>DroEre_CAF1 17164 118 + 1
AAACGGAC--AAACGGACAGCGGACAAAAACGGACACCGAUGCCGUCUGCGACUCCGAAGAGAUAUUAAAAUCAGGCGAACAGACCAAGGAGCAGAUAUAUGCUUUAUAACUGUGUGCCA
........--...((((..((((((.....(((...))).....))))))...))))....(((......))).((((.((((.....((((((......))))))....)))).)))). ( -33.50)
>DroYak_CAF1 18826 117 + 1
AAACGGAC--CAACGGACAGCGG-CAAAAACGGACACCGAUGCCGUCUGCGACUCCGAAGAGAUAUUUAAAUCAGGCGAAGAGACCAAGGAGCAGAUAUAUGCUUUAUAACUGUGUGCCA
........--...((((((((((-((....(((...))).))))).)))....))))....(((......))).((((.(.((.....((((((......))))))....)).).)))). ( -29.40)
>consensus
A_ACGGAC__AAACGGACAGCGGACAAAAACGGACACCGAUGCCGUCUGCGACUCCGAAGAGAUAUUUAAAUCAGGCGAACAGACCAAGGAGCAGAUAUAUGCUUUAUAACUGUGUGCCA
.............((((..((((((.....(((...))).....))))))...))))....(((......))).((((.((((.....((((((......))))))....)))).)))). (-27.69 = -28.50 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:45 2006