Locus 2957

Sequence ID X_DroMel_CAF1
Location 7,900,022 – 7,900,142
Length 120
Max. P 0.706962
window4852

overview

Window 2

Location 7,900,022 – 7,900,142
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.94
Mean single sequence MFE -48.98
Consensus MFE -48.47
Energy contribution -48.35
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -1.60
Structure conservation index 0.99
SVM decision value 0.37
SVM RNA-class probability 0.706962
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7900022 120 - 22224390
AUCCACCGGUUCUGGUACAUCCUCGGCAGCAGUUACCAGCGGACCAGGUAGUGGCUCCACCAAGGUGUCAGUCGCUGCCUCAUCCGCACAACAGUCCGGCCUGCAAGGAGCGACGGGAGC
........(((((.((...((((..(((((........(((((..(((((((((((.(((....)))..)))))))))))..)))))((....))...).)))).))))...)).))))) ( -48.10)
>DroSec_CAF1 646 120 - 1
AUCCACCGGUUCUGGUACAUCCUCGGCAGCAGUUACCAGCGGACCAGGUAGUGGCUCCACGAAAGUGUCAGUCGCUGCCUCAUCCGCACAACAGUCCGGCCUGCAAGGAGCGACGGGAGC
........(((((.((...((((..(((((........(((((..(((((((((((.(((....)))..)))))))))))..)))))((....))...).)))).))))...)).))))) ( -50.40)
>DroSim_CAF1 3763 120 - 1
AUCCGCCGGUUCUGGUACAUCCUCGGCAGCAGUUACCAGCGGACCAGGUAGUGGCUCCACGAAAGUGUCAGUCGCUGCCUCAUCCGCACAACAGUCCGGCCUGCAAGGAGCGACGGGAGC
.((((((((..(((..........((.........)).(((((..(((((((((((.(((....)))..)))))))))))..)))))....))).))))).(((.....)))...))).. ( -51.30)
>DroYak_CAF1 3775 120 - 1
AACCACCGGUUCUGGUACAUCCUCGGCAGCAGUUACCAGCGGACCAGGUAGUGGCUCCACCAAAGUGUCAGCGGCUGCCUCAUCCGCGCAACAGUCCGGCCUGCAAGGAGCGACGGGAGC
........(((((.((...((((..((((.........(((((..(((((((.(((.(((....)))..))).)))))))..)))))((.........)))))).))))...)).))))) ( -46.10)
>consensus
AUCCACCGGUUCUGGUACAUCCUCGGCAGCAGUUACCAGCGGACCAGGUAGUGGCUCCACCAAAGUGUCAGUCGCUGCCUCAUCCGCACAACAGUCCGGCCUGCAAGGAGCGACGGGAGC
........(((((.((...((((..(((((........(((((..(((((((((((.(((....)))..)))))))))))..)))))((....))...).)))).))))...)).))))) (-48.47 = -48.35 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:41 2006