Locus 4855

Sequence ID X_DroMel_CAF1
Location 12,612,371 – 12,612,480
Length 109
Max. P 0.904786
window7930

overview

Window 0

Location 12,612,371 – 12,612,480
Length 109
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -35.05
Consensus MFE -25.02
Energy contribution -25.90
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -2.45
Structure conservation index 0.71
SVM decision value 1.04
SVM RNA-class probability 0.904786
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12612371 109 - 22224390
GAGAAAGCUGCCAAGGAAAGCGGCGAA-AACCCGGCAUGAGCAAAAGCACGUGCA-GCAACGAACUUUCGCUGCAAUGGCGGAAAAUCGUGGCAAUUGGGCA--AGUGG------AAUG
......(((((........)))))...-..(((((((((.((....)).))))).-((.((((..(((((((.....)))))))..)))).))...))))..--.....------.... ( -36.60)
>DroSec_CAF1 1786 110 - 1
GAGAAAGCUGCCAAGGAAAGCGGAGAAAAACCCGGCAUGAGCAAAAGCACGUGCA-CCAGCCAACUUUCGCUGCAAUGGCGGAAAAUCGUGGUAAUUGGGAG--AUUAG------AAAG
.......((.((((((....(((........)))(((((.((....)).))))).-)).((((..(((((((.....))))))).....))))..)))).))--.....------.... ( -32.00)
>DroSim_CAF1 1760 110 - 1
GAGAAAGCUGCCAAGGAAAGCGGAGAAAAACCCGGCAUGAGCAAAAGCACGUGCA-CCAGCGAACUUUCGCUGCAAUGGCGGAAAAUCGUGGCAAUUGGGAG--AGUGG------AAAG
.......((.((((((....(((........)))(((((.((....)).))))).-)).((((..(((((((.....)))))))..)))).....)))).))--.....------.... ( -32.80)
>DroEre_CAF1 2113 118 - 1
GCGAAAGCUGGCAAGGAAAGCGGGGAA-AACCCGGCAAGAGCAAGACCACGUGCAACCUACGAACUUUCGCUGCAAUGGCGGAAAAUCGUGGCUAUUGCGAGAGAGUGGCAAGUGAAAG
((....))(.((.......((.(((..-..))).))........(.((((.(((((.((((((..(((((((.....)))))))..))))))...))))).....)))))..)).)... ( -38.80)
>consensus
GAGAAAGCUGCCAAGGAAAGCGGAGAA_AACCCGGCAUGAGCAAAAGCACGUGCA_CCAACGAACUUUCGCUGCAAUGGCGGAAAAUCGUGGCAAUUGGGAG__AGUGG______AAAG
.......((.((((((....(((........)))(((((.((....)).)))))..)).((((..(((((((.....)))))))..)))).....)))).))................. (-25.02 = -25.90 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:37 2006