Locus 3820

Sequence ID 2R_DroMel_CAF1
Location 12,601,000 – 12,601,098
Length 98
Max. P 0.763403
window6169

overview

Window 9

Location 12,601,000 – 12,601,098
Length 98
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 81.52
Mean single sequence MFE -23.34
Consensus MFE -16.32
Energy contribution -17.35
Covariance contribution 1.03
Combinations/Pair 1.05
Mean z-score -1.86
Structure conservation index 0.70
SVM decision value 0.51
SVM RNA-class probability 0.763403
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12601000 98 - 20766785
UGGCAACCCGCAAGCCGCCAGCCGGUCACAACAAGUCCACC---------ACCAUAUAUCCACCACUCCGGCCGGAGUUGUUUGCCA---CCCAACAACAAUAAUGGCAA
.(((.........)))((((.((((((..............---------...................)))))).((((((.....---...)))))).....)))).. ( -23.01)
>DroSec_CAF1 28486 96 - 1
UGGCAACCCGCAAGCCGCCAGCCGGUCACAACAAGUCCACC---------AUCAC--AUCCACCACUCCGGCCGGAGUUGUUUGCCA---CCCAACAACAAUAAUGGCAA
.(((.........)))((((.((((((..............---------.....--............)))))).((((((.....---...)))))).....)))).. ( -23.08)
>DroSim_CAF1 27751 96 - 1
UGGCAACCCGCAAGCCGCCAGCCGGUCACAACAAGUCCACC---------AUCAC--AUCCACCACUCCGGUCGGAGUUGUUUGCCA---CCCAACAACAAUAAUGGCAA
((((....(....)..))))(((((.(.......).))...---------.....--.((((((.....))).)))((((((.....---...))))))......))).. ( -23.30)
>DroEre_CAF1 25935 99 - 1
UGGCAACCUGGCCGCCGCCAGCCGGUCACAACAAGUCCACC---------ACCAC--AUCCAACACCACGGCCGGAGUUGUUUGCCACCACCCAACAACAAUAAUGGCAA
.((((((((((((((((.....))))........((.....---------...))--............)))))).))))))(((((.................))))). ( -24.63)
>DroYak_CAF1 26881 105 - 1
UGGCAACCUGGUCGCCGCCAGCCGGUCACAACAAGUCCACCACCAUCACCACCAC--GUCCACCACUCCGGCCGGAGUUGUUUGCCA---GCCAACAACAAGAAUGGCAA
((((((.(((((....)))))..((.(.......).)).................--....((.(((((....))))).))))))))---((((..........)))).. ( -26.00)
>DroAna_CAF1 24992 82 - 1
UGGCAACUUGA--ACCGCCAACCGGUCACAACAAGUCCA-----------------------ACACUCCGUCCGGAGUUGUUUGCCA---CCCACAAACAAAAGCAACAG
((((((((((.--((((.....)))).....)))))..(-----------------------(((((((....)))).)))))))))---.................... ( -20.00)
>consensus
UGGCAACCCGCAAGCCGCCAGCCGGUCACAACAAGUCCACC_________ACCAC__AUCCACCACUCCGGCCGGAGUUGUUUGCCA___CCCAACAACAAUAAUGGCAA
.(((.........)))((((.((((((..........................................)))))).((((((.(.......).)))))).....)))).. (-16.32 = -17.35 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:45 2006