Locus 3013

Sequence ID 3L_DroMel_CAF1
Location 8,662,036 – 8,662,145
Length 109
Max. P 0.703702
window4700

overview

Window 0

Location 8,662,036 – 8,662,145
Length 109
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -31.66
Consensus MFE -25.80
Energy contribution -25.20
Covariance contribution -0.60
Combinations/Pair 1.19
Mean z-score -1.62
Structure conservation index 0.81
SVM decision value 0.36
SVM RNA-class probability 0.703702
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8662036 109 + 23771897
CUCUGAAGGCCCCCGUUGUAACGGAACGGAAAUGUAAUAGGAGAUUACUUUCCAGGAAUGCGAAAGCAACG------AGC----AACGAUUUCUUGGAAUUAAGGUUGCUUUUAUCAGA
.(((((....((((((....))))...(((((.(((((.....)))))))))).))..(((....)))..(------(((----((((((((....)))))...)))))))...))))) ( -32.20)
>DroSec_CAF1 49921 113 + 1
CUCUGAAGGCCAUCGUUGUAACGGAACGGAAAUGUAAUAGGAGAUUACUUUCCAGGAAUGCGAAAGCAACG------AGUUGAGGGUGAUUUCUUGGAAUUAAGGUUGCUUUUAUCAGA
.(((((((((.((((((.......)))..........(((((((((((((((......(((....)))...------....))))))))))))))).......))).))))...))))) ( -30.42)
>DroSim_CAF1 50346 113 + 1
CUCUGAAGGCCACCGUUGUAACGGAACGGAAAUGUAAUAGGAGAUUACUUUCCAGGAAUGCGAAAGCAACG------AGUUGAGGGCGAUUUCUUGGAAUUAAGGUUGCUUUUAUCAGA
.(((((...((.((((....))))...(((((.(((((.....)))))))))).))..(((....)))...------...((((((((((..((((....))))))))))))))))))) ( -32.70)
>DroEre_CAF1 51270 112 + 1
CUCUGAAGGCUUCUGUUGUAACGGAACGGAAAUGUAAUGGGAGAUUACUUUCCAAGAAUGCGAGAGC-------AAGUGUACUGGGCGAUUUCUUGGAAUUAAGGCUGCUUUUAUCAGA
.(((((....(((((((.......)))))))...(((.((.((......((((((((((((....))-------)..(((.....)))..)))))))))......)).)).)))))))) ( -28.90)
>DroYak_CAF1 51571 119 + 1
CUCUGAAGGUCUCCGUUGUAACAGAACGGAAAUGUAAUAGGAGAUUACUUUCCAAGAAUGCGAAAGCGAAGGGUAAGGGUUCCGAGCGAUUUCUUGGAAUUAAGCCUGCUUUUAUCAGA
.((((((.((.((((((.......)))))).)).)....(((((....)))))........((((((...((((...(((((((((......)))))))))..)))))))))).))))) ( -34.10)
>consensus
CUCUGAAGGCCACCGUUGUAACGGAACGGAAAUGUAAUAGGAGAUUACUUUCCAGGAAUGCGAAAGCAACG______AGUUCAGGGCGAUUUCUUGGAAUUAAGGUUGCUUUUAUCAGA
.(((((......(((((.......)))))........((((((....((((((((((((((....)))..........((.....))...))))))))...)))....))))))))))) (-25.80 = -25.20 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:23 2006