Locus 5020

Sequence ID 3R_DroMel_CAF1
Location 13,235,951 – 13,236,071
Length 120
Max. P 0.802112
window8205

overview

Window 5

Location 13,235,951 – 13,236,071
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.25
Mean single sequence MFE -37.16
Consensus MFE -34.34
Energy contribution -33.46
Covariance contribution -0.88
Combinations/Pair 1.28
Mean z-score -1.34
Structure conservation index 0.92
SVM decision value 0.62
SVM RNA-class probability 0.802112
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13235951 120 + 27905053
GGUUUACCUCCGUCGAGAUCCGCGGGAGAUAGUCUUUGGAGGAUUUGAUGAAUCUAAAUUUGAGGGAAAACUGCACUAUGUGCCAGUAAGCCAAUGGCAUACGUGGAGUCUUCAGAUAUC
((....))..((((.((((((.(.((((.....)))).).)))))))))).......((((((((....(((.(((..(((((((.........))))))).))).)))))))))))... ( -36.80)
>DroSec_CAF1 264719 120 + 1
GGUUUACCUCCGUCGACAUCCGCGGGAGAUAGUCUUCGGAGGAUUUGAUGAAUCUAAGUUUGAAGGAAAACUGCACUAUGUGCCAGUCAGCCAAUGGCAUACCUGGAGUCUUCAGAUAGC
......((((((..(((((((....).))).)))..))))))((((((.((.(((((((((......)))))......(((((((.........)))))))..)))).)).))))))... ( -36.50)
>DroSim_CAF1 250112 120 + 1
GGUUUACCUCCGUCGACAUCCUCGGGAGAUAAUCUUUGGAGGAUUUGAUGAAUCUAAGUUUGAAGGAAAACUGCACUAUGUGCCAGUCAGCCAAUGGCAUACGUGGAGUCUUCAGAUAGC
((....))..((((((.((((((.((((.....)))).)))))))))))).......((((((((....(((.(((..(((((((.........))))))).))).)))))))))))... ( -41.40)
>DroEre_CAF1 254278 120 + 1
GGUGUACAUCCGUCGAGAUCCGCGGGAGAUAGUCUUCGGUGGUUUUGACGAAACCAAAUUUGAAGGAAAACUGCACUAUGUGCCAGUCAGCCAAUGGCGUACUUGGAGUCUUGAAAUAGC
(((.......((((((((.((((.((((.....)))).))))))))))))..)))..((((.((((...(((((((...))).))))..(((...)))..........)))).))))... ( -34.30)
>DroYak_CAF1 265135 120 + 1
GGUGUACCUCCGUCGAGAGCCGCGGGAGAUAGUCUUUGGCGGUUUCGAUGAAACCAAAUUUGAAGGAAAACUGCACUAUGUGCCAGUGAGCCAAUGGCGUACUUGGAGUCUUGAAAUAAC
((((..((..((((((((.((((.((((.....)))).))))))))))))..............((...(((((((...))).))))...))...))..))))................. ( -36.80)
>consensus
GGUUUACCUCCGUCGAGAUCCGCGGGAGAUAGUCUUUGGAGGAUUUGAUGAAUCUAAAUUUGAAGGAAAACUGCACUAUGUGCCAGUCAGCCAAUGGCAUACGUGGAGUCUUCAGAUAGC
..........((((((.((((((.((((.....)))).)))))))))))).......((((((((....(((.((...(((((((.........)))))))..)).)))))))))))... (-34.34 = -33.46 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:27 2006