Locus 3849

Sequence ID 3L_DroMel_CAF1
Location 11,153,053 – 11,153,169
Length 116
Max. P 0.993973
window5995

overview

Window 5

Location 11,153,053 – 11,153,169
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 75.96
Mean single sequence MFE -37.35
Consensus MFE -24.13
Energy contribution -25.69
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.40
Structure conservation index 0.65
SVM decision value 2.44
SVM RNA-class probability 0.993973
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11153053 116 - 23771897
UAAGCCAUUGGCAAGGAGCAGCAGGUGGCAGCGGGUGGUAUGGCAUGGUCUCCGACCCACCUGCUGGAUAAAACACAAUUUACACGAAUUGGGGGUCAAAGGAUGUCCAUUUCGGA
...(((((..((........))..)))))(((((((((..(((........)))..)))))))))...................((((.((((.(((....))).)))).)))).. ( -43.10)
>DroSec_CAF1 13718 93 - 1
UAAGCCAAUGGCAAGGAGCAGCAGGUGGG-----------------------CGACCCACCUGCUGGAUAAACCACAAUUUACACGAACUGGGGGUCAAAGGAUGCCCAUUUCGGA
...(((...)))......(((((((((((-----------------------...)))))))))))..................((((.((((.(((....))).)))).)))).. ( -39.80)
>DroEre_CAF1 14056 111 - 1
UAAGCCAACGGCAAGGAGCAGCAGGUGGG--CGGU-GGUA--ACUUGGUCUCCGAGCCUCCUGGUGAAUAAACCACAAUUUACACAAACUGGGGGUCAAGGGAUGCCCACUUCGGA
....((....((.....)).(.(((((((--((((-....--)))..(((((...((((((((((((((........)))))).))....))))))...)))))))))))))))). ( -34.50)
>DroYak_CAF1 14519 96 - 1
UAAACCAGCGUCAAGGAUCAGCAGGUGGG--CUGUUGGUA--G----------------CCUGGUGUAUAAACCACAAUUUACACGAACUGGGGGUCAAAGGAUGCCCAUUUCGUA
...(((((.((.....((((((((.....--)))))))).--)----------------))))))..................(((((.((((.(((....))).)))).))))). ( -32.00)
>consensus
UAAGCCAACGGCAAGGAGCAGCAGGUGGG__CGGU_GGUA__G_________CGACCCACCUGCUGGAUAAACCACAAUUUACACGAACUGGGGGUCAAAGGAUGCCCAUUUCGGA
....((........))..((((((((((............................))))))))))..................((((.((((.(((....))).)))).)))).. (-24.13 = -25.69 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:19 2006