Locus 4893

Sequence ID 3L_DroMel_CAF1
Location 13,631,786 – 13,631,885
Length 99
Max. P 0.595990
window7724

overview

Window 4

Location 13,631,786 – 13,631,885
Length 99
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.03
Mean single sequence MFE -24.83
Consensus MFE -14.97
Energy contribution -16.58
Covariance contribution 1.61
Combinations/Pair 1.13
Mean z-score -1.65
Structure conservation index 0.60
SVM decision value 0.13
SVM RNA-class probability 0.595990
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13631786 99 - 23771897
GACCCCGCCCCACCCGAAAAAA-ACACCCCAUCAU-------CCGCCCACUUUUGCAGCAUAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUGCGAAGCAGA
.....(((.......((.....-........))..-------.((((.((..((((((((((...))))))))))....)).))))...........)))....... ( -17.92)
>DroSec_CAF1 39236 99 - 1
UGCCCCGCCCCACCCGAAAAAA-ACACCCCAUCAU-------CCGCCCACUUUUGCAGCAUAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUGCGGAGCAGA
(((.((((.......((.....-........))..-------.((((.((..((((((((((...))))))))))....)).))))...........)))).))).. ( -25.32)
>DroSim_CAF1 49078 99 - 1
UGCCCCGCCCCACCCGAAAAAA-ACACCCCAUCAU-------CCGCCCACUUUUGCAGCAUAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUGCGGAGCAGA
(((.((((.......((.....-........))..-------.((((.((..((((((((((...))))))))))....)).))))...........)))).))).. ( -25.32)
>DroEre_CAF1 41559 96 - 1
AGCCCCGCCCCCUCGGAAAAAC----CCCCAUCAU-------CCGCCCACUUUCGCAGCAUAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUACGGAGCAGA
.((.(((.......((......----..)).....-------.((((.((....((((((((...))))))))......)).))))............))).))... ( -22.00)
>DroYak_CAF1 46215 107 - 1
UGCCCCGCCCCCUCCGAAAAAACACACCCCAUUAUCCCACAUCAGCCCACUUUUGCAGCACAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUGCGGAGCAAA
(((.((((.......(......)................(((((((......((((((((.......))))))))....)))))))...........)))).))).. ( -24.00)
>DroAna_CAF1 75140 82 - 1
UGCCCUCCCCUGCCGG------------CCACUAG-------CCCGGCGCGGCUGCAGCAUAGCAUAUGUUGCAACUCUGUUGGGGA-ACGCAGAAGGAG-----AA
(((..(((((.(((((------------((.....-------...))).))))(((((((((...)))))))))........)))))-..))).......-----.. ( -34.40)
>consensus
UGCCCCGCCCCACCCGAAAAAA_ACACCCCAUCAU_______CCGCCCACUUUUGCAGCAUAGCAUAUGUUGCAACUCUGUUGGUGAAACGAAAAAUGCGGAGCAGA
.((.(((((......)...........................((((.((..((((((((((...))))))))))....)).))))...........)))).))... (-14.97 = -16.58 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:18 2006