Locus 4604

Sequence ID 3R_DroMel_CAF1
Location 12,104,497 – 12,104,605
Length 108
Max. P 0.997614
window7567

overview

Window 7

Location 12,104,497 – 12,104,605
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 92.68
Mean single sequence MFE -35.29
Consensus MFE -29.58
Energy contribution -29.50
Covariance contribution -0.08
Combinations/Pair 1.08
Mean z-score -2.60
Structure conservation index 0.84
SVM decision value 2.89
SVM RNA-class probability 0.997614
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12104497 108 + 27905053
GGAAGGAAAAGCGGACAAACAGAUUAGAUGUGGCUUUGGAGAGGAGAGGAGCCUAGCAAGAUGCUCAGGUCAAGUCUGGGUUUUGUUUGAGUUCCUUUUGUUUCCAUC
.......(((((.(.((...........))).)))))(((((.((((((((((.((((((..(((((((.....))))))))))))).).))))))))).)))))... ( -35.00)
>DroSec_CAF1 10483 103 + 1
GGAAGGAAAAGCGGACAAACAGAUUAGACGUGGCUUUGGAG-----AGGAGCCUAGAAAGAUGCUCAGGUCAAGUCUGGGUUUUGUUUGAGUUCCUUUUGUCUCCACC
((((((((...((((((((((((((.(((.(((((((....-----((....))....))).)).)).))).))))))...))))))))..))))))))......... ( -32.60)
>DroSim_CAF1 10425 108 + 1
GGAAGGAAAAGCGGACAAACAGAUUAGACGUGGCUUUGGAGAGGAGAGGAGCCUAGAAAGAUGCUCAGGUCAAGUCUGGGUUUUGUUUGAGUUCCUUUUGUCUCCACC
((((((....(((...............)))..))))(((((.(((((((((.((((.....(((((((.....)))))))....)))).))))))))).))))).)) ( -35.66)
>DroEre_CAF1 10140 103 + 1
GGAAGGAAAAGCGGACAAACAGAUUAGACGUGGCUUUGGAG-----AGCAGCCUAGCAAGUUGCUCAGGUCAAGUCUGGUUUUUGUUUGAGUUCCUUUUGUUUCUACC
((((((((...((((((((..((((((((.((((((....(-----((((((.......))))))))))))).))))))))))))))))..))))))))......... ( -39.00)
>DroYak_CAF1 14619 103 + 1
GGAAGGAAAAGCGGACAAACAGAUUAGACGUGGCUUUCGAG-----AGGAGCCUAGCAAGUUGCUCAGGUCAAGUCUGGUUUUUGUUUGAGUUUCUUUUGUUUCCACC
(((((.(((((..(.((((((((((((((.((((((....(-----((.(((.......))).))))))))).))))))))..))))))..)..))))).)))))... ( -34.20)
>consensus
GGAAGGAAAAGCGGACAAACAGAUUAGACGUGGCUUUGGAG_____AGGAGCCUAGCAAGAUGCUCAGGUCAAGUCUGGGUUUUGUUUGAGUUCCUUUUGUUUCCACC
(((((.(((((.(((((((((((((((((.(((((...(((.....((....)).........))).))))).))))))..)))))))..))))))))).)))))... (-29.58 = -29.50 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:24 2006