Locus 1363

Sequence ID 3R_DroMel_CAF1
Location 4,001,833 – 4,001,952
Length 119
Max. P 0.594591
window2243

overview

Window 3

Location 4,001,833 – 4,001,952
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.28
Mean single sequence MFE -34.17
Consensus MFE -31.54
Energy contribution -31.47
Covariance contribution -0.06
Combinations/Pair 1.03
Mean z-score -1.42
Structure conservation index 0.92
SVM decision value 0.12
SVM RNA-class probability 0.594591
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4001833 119 - 27905053
GGUCCAAGUUUUUGACAAUAUUUGUGUGUGUGGUGCAUUUUCAUUUGUUGUUGGCAACUUUUU-UGGCUUAUCGGCCGGGCAAAAUCGGGCAAAUGAAAACUUUUUGCUGGCCGCCCGUU
.(((((((((.(..((((((..((.((((.....))))...))..))))))..).)))))...-.((((....)))))))).....(((((......................))))).. ( -34.05)
>DroSec_CAF1 7427 119 - 1
GGUCCAAGUUUUUGACAAUAUUUGUGUGUGUCGUGCAUUUUCAUUUGUUGUUGGCAACUUUUU-UGGCUUAUCGGCCGGGCAAAAUCGGGCAAAUGAAAAGUUUUUGCUGGCCGCCCGUU
.(((((((((.(..((((((..((.((((.....))))...))..))))))..).)))))...-.((((....)))))))).....(((((....(...(((....)))..).))))).. ( -35.60)
>DroSim_CAF1 8007 112 - 1
GGUCCAG--UUUUGACAAUAUUUGUGUGUGUCGUGCAUUUUCAUUUGUUGU-GGCA-CCUUUU-UGGCUUAUCGGCCGGGCA-AAUCGGGCAAAUGAAAG--UUUUGCUGGCCGCCCGUU
((.((((--(...(((..(((((((.((((((((((.....((.....)).-.)))-).....-(((((....)))))))))-...)).)))))))...)--))..)))))))....... ( -32.30)
>DroYak_CAF1 7358 120 - 1
UGUCCAAGUUUUUGACAAUAUUUGUGUGUGUCGUGCAUUUUCAUUUGUUGUUGGCAACUUUUUCUGGCUUAUCGGCCGGGCAAAAUCGGGCAAAUGAAAACUUUUUGCUGGCCGCCCGUU
((((((((((.(..((((((..((.((((.....))))...))..))))))..).))))).....((((....)))))))))....(((((......................))))).. ( -34.75)
>consensus
GGUCCAAGUUUUUGACAAUAUUUGUGUGUGUCGUGCAUUUUCAUUUGUUGUUGGCAACUUUUU_UGGCUUAUCGGCCGGGCAAAAUCGGGCAAAUGAAAACUUUUUGCUGGCCGCCCGUU
.(((((((((.(..((((((..((.((((.....))))...))..))))))..).))))).....((((....)))))))).....(((((......................))))).. (-31.54 = -31.47 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:07 2006