Locus 221

Sequence ID 2R_DroMel_CAF1
Location 1,559,425 – 1,559,539
Length 114
Max. P 0.523143
window493

overview

Window 3

Location 1,559,425 – 1,559,539
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.83
Mean single sequence MFE -29.84
Consensus MFE -13.86
Energy contribution -13.30
Covariance contribution -0.56
Combinations/Pair 1.48
Mean z-score -1.80
Structure conservation index 0.46
SVM decision value -0.02
SVM RNA-class probability 0.523143
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1559425 114 - 20766785
AACGAAAUCUCAUCAAAAUAGGUUUCUUUUUUUGGGUUCGAGGGAAUUCCAG-----GCCUGAA-UCCGGGAACAUAAGACGUGUUCUUUAUUUGGAACUUUUCAAAAGAUUGCCUUAAA
...................((((.((((((...((((((.(((((.(((...-----....)))-)))((((((((.....))))))))...)).))))))...))))))..)))).... ( -24.20)
>DroSec_CAF1 9175 119 - 1
AACGAAAUCUCAUCAAGAUAGGUUUCUUUUUUUGGGUUCGAAGGAAUUCAAGGCAAGGCCCGAGUUCCGGGCACAUAGGAACUGUUCUUUAUUUGGAACUU-UCAAAAGAUUGCCUCAAA
...(((((((.((....))))))))).....((((((((....))))))))(((((.(((((.....)))))......(((..(((((......))))).)-))......)))))..... ( -36.60)
>DroSim_CAF1 10653 119 - 1
AACGAAAUCUCAUCAAAAUAGGUUUCUUUUUUUGGGUUCGAAGGAAUUCAAGGCAAGGCCCGAGUUCCGGGCACAUAGGAGCUGUUCUUUAUUUGGAACUU-UCAAAAGAUUGCCUCAAA
...(((((((.........))))))).....((((((((....))))))))(((((.(((((.....)))))......(((..(((((......))))).)-))......)))))..... ( -35.70)
>DroEre_CAF1 9576 104 - 1
AACCAAAUCUCAUCAAGCCAGG--GAUU----UGGUGUCGAAGGAAUUUAGG-----GCUUAAG-UCCGGGACCAUAAGAACUGUGCCCUAUUUGGAACUU-UUAAAGGAUUGCCUU---
.((((((((((.........))--))))----)))).((....))....(((-----((...((-((((((..((((.....)))))))..((((((...)-)))))))))))))))--- ( -27.60)
>DroYak_CAF1 15745 111 - 1
AACGAAAUUCCAUCAAACCAUU--UAUUUAUAUGGUGUUGAAAAAAUUGGAG-----GCUUGAG-UCCGGGAACAUAAGAACUGUUUCUUUUUUGGAACUU-UCAAAGGAUUGCCAUAUA
........(((((((((((((.--.......))))).))))......))))(-----((...((-((((....)....(((..(((((......))))).)-))...))))))))..... ( -25.10)
>consensus
AACGAAAUCUCAUCAAAAUAGGUUUCUUUUUUUGGGUUCGAAGGAAUUCAAG_____GCCUGAG_UCCGGGAACAUAAGAACUGUUCUUUAUUUGGAACUU_UCAAAAGAUUGCCUUAAA
.....(((((......................(((((((....)))))))........((((.....)))).......((...(((((......)))))...))...)))))........ (-13.86 = -13.30 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:49 2006