Locus 8345

Sequence ID 3R_DroMel_CAF1
Location 22,267,757 – 22,267,870
Length 113
Max. P 0.574548
window13449

overview

Window 9

Location 22,267,757 – 22,267,870
Length 113
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 91.75
Mean single sequence MFE -36.28
Consensus MFE -25.30
Energy contribution -24.78
Covariance contribution -0.52
Combinations/Pair 1.13
Mean z-score -2.41
Structure conservation index 0.70
SVM decision value 0.08
SVM RNA-class probability 0.574548
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22267757 113 + 27905053
AGCA--GCAACUUGGCUG--CGUUUGUUUGCGACCAAAGUAGGGGGAACAGUUUAAUUAAUGUGCAAACAAAAGCUGUGAAUUCUCAUCAUCAAUGAGAGUCCCGCUUAACCUGCCA
.(((--(..((((((.((--((......)))).)).))))((.(((((((((((......(((....))).)))))))...(((((((.....))))))))))).))....)))).. ( -31.90)
>DroSec_CAF1 40434 113 + 1
AGCA--GCAACUUGGCUG--CGUUUGUUUGCGGCCAAAGUAGGGGGAACAGUUUAAUUAAUGUGCAAACAAAAGCUGUGAAUUCUCAUCAUCAAUGAGAGCCCCGCUUAACCUGCCG
.(((--(.....((((((--((......))))))))((((.((((..(((((((......(((....))).)))))))...(((((((.....)))))))))))))))...)))).. ( -38.90)
>DroSim_CAF1 41413 113 + 1
AGCA--GCAACUUGGCUG--CGUUUGUUUGUGGCCAAGGUAGGGGGAACAGUUUAAUUAAUGUGCAAACAAAAGCUGUGAAUUCUCAUCAUCAAUGAGAGUCCCGCUUAACCUGCCG
.(((--(...((((((..--((......))..)))))).(((((((((((((((......(((....))).)))))))...(((((((.....))))))))))).))))..)))).. ( -39.30)
>DroEre_CAF1 51153 115 + 1
GGCAAGCCAACUUGGCUC--CGUUUGUUUGCGCCCAAAGUAAGGGGAACAGUUUAAUUAAUGUGUAAACAAAAGCCGUGAAUUCUCAUCAUCAAUGAGAGUCCCGCUUGAGCUGCCA
((((.(((((...((((.--..(((((((((.(((.......)))..(((..........))))))))))))))))(((.((((((((.....))))))))..)))))).)))))). ( -37.70)
>DroYak_CAF1 45893 117 + 1
AGCCAAGCAACUUGGCUCCCCGUUUGUUUGCGCCCAAAGUGAGGGGAGCAGUUUAAUUAAUGUGCAAACAAAAGCUGUGAAUUCUCAUCAUCAAUGAGAGUCCCGCUUAACCUGCCA
.((((((...))))))(((((.....((((....))))....)))))((((.........(((....))).((((.(.((.(((((((.....)))))))))).))))...)))).. ( -33.60)
>consensus
AGCA__GCAACUUGGCUG__CGUUUGUUUGCGCCCAAAGUAGGGGGAACAGUUUAAUUAAUGUGCAAACAAAAGCUGUGAAUUCUCAUCAUCAAUGAGAGUCCCGCUUAACCUGCCA
............((((.......((((((((..((........))..(((..........)))))))))))((((.(.((.(((((((.....)))))))))).)))).....)))) (-25.30 = -24.78 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:18 2006