Locus 1293

Sequence ID 3R_DroMel_CAF1
Location 3,817,686 – 3,817,796
Length 110
Max. P 0.952365
window2110

overview

Window 0

Location 3,817,686 – 3,817,796
Length 110
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 83.93
Mean single sequence MFE -33.32
Consensus MFE -27.36
Energy contribution -27.08
Covariance contribution -0.28
Combinations/Pair 1.13
Mean z-score -2.17
Structure conservation index 0.82
SVM decision value 1.42
SVM RNA-class probability 0.952365
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3817686 110 + 27905053
GGUGUUGUUGCUCUCGGGGGCGGUUUACUACGCUCACUGAACGCAGCAGCGUUUCAAGUUGCAAGUUGUUGAAAUUCACACAAAAAA-CAAUCAAG--AUAACUCUU-UAUG----AA
...((((((((..(((((((((........))))).))))..))))))))(((((..((((....((((((.....)).))))....-))))...)--).)))....-....----.. ( -29.70)
>DroSec_CAF1 45580 112 + 1
GGUGUUGUUGCUCUCGGGGGCGGUUUACUCCGCUCACUGAACGCAGCAGCGUUUCAAGUUGCAAGUUGUUGAAAUUCACACAGAAAA-AAAUCAAG----AACUCUG-UAUAUAUAUA
...((((((((..((((((((((......)))))).))))..)))))))).........((((((((.((((..(((.....)))..-...)))).----)))).))-))........ ( -35.90)
>DroSim_CAF1 50159 109 + 1
GGUGUUGUUGCUCUCGGGGGCGGUUUACUCCGCUCACUGAACGCAGCAGCGUUUCAAGUUGCAAGUUGUUGAAAUUCACACAGAAAAAAAAACAAG----AACUCUG-UAUG----UA
...((((((((..((((((((((......)))))).))))..)))))))).........((((((((.(((...(((.....))).......))).----)))).))-))..----.. ( -33.40)
>DroEre_CAF1 36994 97 + 1
GGUGUUGUUGCUCUCGGGGGCGGUUUACUCCGCUCACUGAACGCAGCAGCGUUUCAAGUUGCAAGUUGUGGAAAUUCAUGCAGAAAU-AAUUCGAA--------------------AA
...((((((((..((((((((((......)))))).))))..)))))))).((((....((((.(..((....)).).))))(((..-..))))))--------------------). ( -33.50)
>DroYak_CAF1 49691 113 + 1
GGUGUUGUUGCUUUUGGGGGCGGUUUACUCCGCUCACUGAACGCAGCAGCGUUUUAAGUUGCAAGUUGUUGAAAUUCACACAGAAAU-AUUUGGAAUUAUGACUCCGAAAUG----AA
((.((((((((.((..(((((((......)))))).)..)).))))))))(((...((((.((((((((((.....)).))).....-))))).))))..))).))......----.. ( -34.10)
>consensus
GGUGUUGUUGCUCUCGGGGGCGGUUUACUCCGCUCACUGAACGCAGCAGCGUUUCAAGUUGCAAGUUGUUGAAAUUCACACAGAAAA_AAAUCAAG____AACUCUG_UAUG____AA
.((((((((((..((((((((((......)))))).))))..))))))(((........)))...............))))..................................... (-27.36 = -27.08 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:51 2006