Locus 5545

Sequence ID 2R_DroMel_CAF1
Location 17,693,178 – 17,693,298
Length 120
Max. P 0.661169
window8896

overview

Window 6

Location 17,693,178 – 17,693,298
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.41
Mean single sequence MFE -36.92
Consensus MFE -30.06
Energy contribution -31.02
Covariance contribution 0.96
Combinations/Pair 1.09
Mean z-score -1.46
Structure conservation index 0.81
SVM decision value 0.27
SVM RNA-class probability 0.661169
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17693178 120 + 20766785
CGGCCCUCAAGGCGUGGUUUAGUAAGUGGCUGCACUGCCACUGUGGGGGCUUUUGGAAGCAGGUUCACUAGUAAAUCUAUGUGAGCAAUGACCUUAGUUAUUAAGUAUGAUUUAAGCUUC
.((((((((..((........)).((((((......)))))).))))))))....(((((..(((((((((.....))).))))))((((((....)))))).............))))) ( -41.10)
>DroSec_CAF1 2800 119 + 1
CGGCCCUCAAGGCGUGGUUUAGUAAGUGGCUGCACUGCCACUGUGGGGGCUUCUGGAAGCAGGUUCACUAGUAAAUCUAUGUGAGCAAUAA-CUUAGUUCUUAAGUAUGAUUUAAGCUUC
.((((((((..((........)).((((((......)))))).))))))))....(((((..(((((((((.....))).))))))....(-(((((...)))))).........))))) ( -40.10)
>DroSim_CAF1 1997 119 + 1
CGGCCCUCAAGGCGUGGUUUAGUAAGUGGCUGCACUGCCACUGUGGGGGCUUCUGGAAGCAGGUUCACUAGUAAAUCUGUGUGAGCAAUGA-CUUAGUUCUUAAGUAUGAUUUAAGCUUC
.((((((((..((........)).((((((......)))))).))))))))....(((((..(((((((((.....))).))))))....(-(((((...)))))).........))))) ( -39.90)
>DroEre_CAF1 2618 113 + 1
CGGCCCUCAAGGCGUGGUUUAGCAAGUGGCUGCACUGUCACUGCGGGGGCUUCUGGAAGCAGGUCCACUAGUAAAUCUAAAUGA-------CCUUAGUUCUUAAGUAUAAUAUAAGCAUC
.(((((((...((........)).((((((......))))))..)))))))...(((...(((((...(((.....)))...))-------)))...))).................... ( -30.50)
>DroYak_CAF1 2497 120 + 1
CGGCCCUCAAGGCGUGGUUCAGCAAGUGGCUGCACUGUCACUGCGGUGGCUUCUGGAAACAGGUUCACUAGUAAAUCUAAAUGAGCACUGUCCUUAGUUCUUAAGUAUAAUUUAAGCUUC
..(((.....)))...((((((((.(((((......))))))))(((((..((((....)))).)))))............)))))((((....)))).(((((((...))))))).... ( -33.00)
>consensus
CGGCCCUCAAGGCGUGGUUUAGUAAGUGGCUGCACUGCCACUGUGGGGGCUUCUGGAAGCAGGUUCACUAGUAAAUCUAUGUGAGCAAUGACCUUAGUUCUUAAGUAUGAUUUAAGCUUC
.(((((((...((........)).((((((......))))))..)))))))....(((((..(((((((((.....))).))))))......(((((...)))))..........))))) (-30.06 = -31.02 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:24 2006