Locus 6631

Sequence ID 2R_DroMel_CAF1
Location 20,722,874 – 20,722,994
Length 120
Max. P 0.978645
window10560

overview

Window 0

Location 20,722,874 – 20,722,994
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.92
Mean single sequence MFE -33.46
Consensus MFE -31.74
Energy contribution -31.82
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -1.61
Structure conservation index 0.95
SVM decision value 1.82
SVM RNA-class probability 0.978645
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20722874 120 + 20766785
UCCAAAGAGAGCACAUCAAUGGCCAACAGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCAACACGUGCGGGCGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((.....((.(((...(((((........((((((...((....))))))))....)))))..))).))(((((.(((...(....)...)))...)))))...)))))........ ( -33.00)
>DroSec_CAF1 156234 120 + 1
UCCAAAGAGCGCACAUCAAUGGCCGACAGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCGACACGUGCGGACGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((...((.(((.....(((((........((((((...((....))))))))....)))))..))).))(((((.(((...(....)...)))...)))))...)))))........ ( -33.40)
>DroSim_CAF1 161317 120 + 1
UCCAAAGAGCGCAUAUCAAUGGCCGACAGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCGACACGUGCGGACGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((...((.(((.....(((((........((((((...((....))))))))....)))))..))).))(((((.(((...(....)...)))...)))))...)))))........ ( -31.90)
>DroEre_CAF1 197341 120 + 1
UCCAAAGAGCGCACAUCAAUGGCCGACAGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCGACACGUGCGGGCGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((...((.(((.....(((((........((((((...((....))))))))....)))))..))).))(((((.(((...(....)...)))...)))))...)))))........ ( -34.50)
>DroYak_CAF1 162534 116 + 1
UCCAAAGAGCGCACAUCAAUGGC----AGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCGACACGUGCGGGCGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((...((.(((.....((((----.....((((((...((....)))))))).....))))..))).))(((((.(((...(....)...)))...)))))...)))))........ ( -34.50)
>consensus
UCCAAAGAGCGCACAUCAAUGGCCGACAGACGUGAUGCAGACGGAGACGGCAUUAAAAGGGUUAAAGUGGGCGACACGUGCGGGCGAAAGAGAGCGAAAGUGUUAAAUUGGAGCACAUGC
(((((...((.(((.....(((((........((((((...((....))))))))....)))))..))).))(((((.(((...(....)...)))...)))))...)))))........ (-31.74 = -31.82 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:41 2006