Locus 602

Sequence ID 3R_DroMel_CAF1
Location 2,236,642 – 2,236,748
Length 106
Max. P 0.656637
window955

overview

Window 5

Location 2,236,642 – 2,236,748
Length 106
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 88.39
Mean single sequence MFE -28.60
Consensus MFE -22.04
Energy contribution -22.48
Covariance contribution 0.44
Combinations/Pair 1.15
Mean z-score -1.63
Structure conservation index 0.77
SVM decision value 0.26
SVM RNA-class probability 0.656637
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2236642 106 + 27905053
GAA-AAACAAAAACAAACUGCGUACAGGCCUUUCAAUAAAUGGCGGCAUGGUCGGUGGAAUGGGUUGAAGAGAGGGUGAAA-AGAGGAGCCCCCUCUGAGGUGUUGGU
...-.........((((((.(...(((.(((((((.....((((......)))).))))).)).))).((((.((((....-......)))).))))).))).))).. ( -23.50)
>DroSec_CAF1 25686 105 + 1
GAA-AAACAAAAACAAACUGCGUGCAGGCCUUUCAAUAAAUGGCGGCAUGGGCGGUAGAAUGGGUGGAAGAGAGGGGGGAA-AGAGGAGCC-CCUCGGAGGAGUUGGU
...-...(((...(..(((((((((..(((...........))).))))..)))))...............((((((....-.......))-))))...)...))).. ( -27.20)
>DroSim_CAF1 27084 106 + 1
GAA-AAACAAAAACAAACUGCGUGCAGGCCUUUCAAUAAAUGGCGGCAUGGGCGGCAGAAUGGGUGGAAGAGAGGGGGGAA-AGAGGAGCCCCCUCUGAGGAGUUGGU
...-...(((...(...((((((.((.(((..(((.....))).))).)).)).))))............((((((((...-.......))))))))..)...))).. ( -31.20)
>DroEre_CAF1 25942 106 + 1
GAA-AAACAAAAACAAACUGCGUGCAGGCCUUUCAAUAAAUGGUGGCAUGGGCGACGGAGUGGGGUGAAAAUAGGGGGCAA-AGAGGAGUCCCCUCUGUGGAGUUGGU
...-...(((..(((..((((((.((.(((..(((.....))).))).)).))).)))..............(((((((..-......))))))).)))....))).. ( -29.00)
>DroYak_CAF1 24690 107 + 1
GAAAAAACAAAAACAAACUGCGUGCAGGCCUUUCAAUAAAUGGCAGCAUGGGCGACGGAAUGG-UUGAAAAGAGGGGGCAAGAGGAGAGCUCCCUCUGUGGAGUUUUU
..((((((...(((...((((((.((.(((...........)))....)).))).)))....)-))....(((((((((.........))))))))).....)))))) ( -32.10)
>consensus
GAA_AAACAAAAACAAACUGCGUGCAGGCCUUUCAAUAAAUGGCGGCAUGGGCGGCGGAAUGGGUUGAAGAGAGGGGGCAA_AGAGGAGCCCCCUCUGAGGAGUUGGU
.....(((.....((..((((((.((.(((..(((.....))).))).)).))).)))..))........((((((((...........)))))))).....)))... (-22.04 = -22.48 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:07 2006