Locus 4210

Sequence ID 2R_DroMel_CAF1
Location 13,838,723 – 13,838,840
Length 117
Max. P 0.872059
window6766

overview

Window 6

Location 13,838,723 – 13,838,840
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.19
Mean single sequence MFE -31.86
Consensus MFE -25.20
Energy contribution -24.84
Covariance contribution -0.36
Combinations/Pair 1.06
Mean z-score -1.88
Structure conservation index 0.79
SVM decision value 0.87
SVM RNA-class probability 0.872059
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13838723 117 + 20766785
GCCAAGAAGCAACAUUUAGUUUUUCGACAGUUUC--CACUUAACAUGUAGAUGAAAUGGUUAUGCGCGGAUAAACAACUUCAGCUUGUUGCUG-UUUGUCUGGCUGCCCCGCAGCUUCUU
...(((((((..(((((((((....))).(((..--.....)))...))))))....(((...((.((((((((((......((.....))))-)))))))))).))).....))))))) ( -29.40)
>DroSec_CAF1 139060 118 + 1
AUCAAGAAGCAACAUUUAGUUUUUCGACAGUUUCCCCACUUAACAUGUAGAUGAAAUGGUUAUGCGCGGAUAAACAACUUCAGCUUGUUGCUGGUUUGUCUGGCUGC--CGCAGCUUCUU
...(((((((..(((((((((....))).(((.........)))...))))))....(((...((.(((((((((.....((((.....))))))))))))))).))--)...))))))) ( -32.80)
>DroSim_CAF1 144306 118 + 1
AUCAAGAAGCAACAUUUAGUUUUUCGACAGUUUCCCCACUUAACAUGUAGAUGAAAUGGUUAUGCGCGGAUAAACAACUUCAGCUUGUUGCUGGUUUGUCUGCCUGC--CGCAGCUUCUU
...(((((((..(((((((((....))).(((.........)))...))))))....(((...(.((((((((((.....((((.....))))))))))))))).))--)...))))))) ( -32.80)
>DroEre_CAF1 139873 114 + 1
AUCAAGAAGCAGCAUUUAGUU-UUCGACUGUUUC--UACUUACCAUGUAGAUGAAAUGGUUAUGCGCAGAUAAACAACUUCAGCUUGUUGCUG-UUUGUCUGGCUGC--CCGAGCUUCUU
...(((((((.((((.....(-((((......((--(((.......)))))))))).....))))((((.((.((((...((((.....))))-.)))).)).))))--....))))))) ( -32.60)
>DroYak_CAF1 144154 114 + 1
AUCAAGAAGCAACAUUUAGUU-UUCGACAGUUUC--UGCUUAACAUGCAGAUGAAAUGGUUAUGCGCAGAUAAACAACUUCAGCUUGUUGCUG-UUUGUCUGGCUCC--CCGAGCUUCUU
...(((((((..........(-((((......((--(((.......))))))))))(((....((.((((((((((......((.....))))-))))))))))...--))).))))))) ( -31.70)
>consensus
AUCAAGAAGCAACAUUUAGUUUUUCGACAGUUUC__CACUUAACAUGUAGAUGAAAUGGUUAUGCGCGGAUAAACAACUUCAGCUUGUUGCUG_UUUGUCUGGCUGC__CGCAGCUUCUU
...(((((((...............(((.(((((...((.......))....))))).)))..((.((((((((......((((.....)))).)))))))))).........))))))) (-25.20 = -24.84 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:22 2006