Locus 6680

Sequence ID 3L_DroMel_CAF1
Location 17,756,823 – 17,756,943
Length 120
Max. P 0.640087
window10871

overview

Window 1

Location 17,756,823 – 17,756,943
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.89
Mean single sequence MFE -25.19
Consensus MFE -19.60
Energy contribution -20.98
Covariance contribution 1.37
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.78
SVM decision value 0.22
SVM RNA-class probability 0.640087
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17756823 120 + 23771897
GUCGACGGUAUGGAAAACUACAACACUUGUUAUCCAAACGCAAAAUGUGUAAAAAUAACGAUCGGUGUUUGCUUCUUUAGUUGAAGAAAACUGAUGUGUUAAAUUAAACAAAUAGUAUUC
.(((((.....((((....(((....(((((((....((((.....))))....)))))))....)))....))))...))))).(((.((((...((((......))))..)))).))) ( -21.30)
>DroSec_CAF1 2812 120 + 1
GUCGACGGUAUGGAAAACUACAAGAAUUGUUAUUCGAACGCAUAAUGUGUAAAAAUAACGAUUGGUGUUUACUUCUUUAGUUGAAGAAAACUGUUCUGUUAAAUUAAGCAAAUAGUAUUC
.(((((.....((((....(((..((((((((((...((((.....))))...))))))))))..)))....))))...))))).(((.((((((.((((......)))))))))).))) ( -28.20)
>DroSim_CAF1 6742 120 + 1
GUCGACGGUAUGGAAAACUACAAGAAUUGUUAUUCGAACGCAAAAUGUGUAAAAAUAACGAUUGAUGUUUACUUCUUUAGUUGAAGAAAACUGUUCUGUUAAAUUAAGCAAAUAGUUUUC
.(((((.....((((....(((..((((((((((...((((.....))))...))))))))))..)))....))))...))))).((((((((((.((((......)))))))))))))) ( -30.50)
>DroYak_CAF1 21758 117 + 1
GUCGACGGUAUGGAAAAAUACAAGACUUGUUAUUCGAACGCAAAAUAGGUAAUUACAACAAUUGGUGUUUACUUCUUUACUUGAAGAAAACUGUUCUGUUAAGUCAAACAAACAGUA---
(((....((((......))))..))).........((((((.......((....))........)))))).((((.......))))...((((((.((((......)))))))))).--- ( -20.76)
>consensus
GUCGACGGUAUGGAAAACUACAAGAAUUGUUAUUCGAACGCAAAAUGUGUAAAAAUAACGAUUGGUGUUUACUUCUUUAGUUGAAGAAAACUGUUCUGUUAAAUUAAACAAAUAGUAUUC
.(((((.....((((....(((..(((((((((....((((.....))))....)))))))))..)))....))))...))))).....((((((.((((......)))))))))).... (-19.60 = -20.98 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:24 2006