Locus 6539

Sequence ID 2R_DroMel_CAF1
Location 20,440,869 – 20,440,966
Length 97
Max. P 0.728038
window10414

overview

Window 4

Location 20,440,869 – 20,440,966
Length 97
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.05
Mean single sequence MFE -33.37
Consensus MFE -16.22
Energy contribution -17.08
Covariance contribution 0.86
Combinations/Pair 1.32
Mean z-score -2.13
Structure conservation index 0.49
SVM decision value 0.42
SVM RNA-class probability 0.728038
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20440869 97 - 20766785
CUGCUUAGCUGGGCAAAUAGCCCAUGGAUACACCCAAUAUGGACGGGUUACGUCCUCGUU-------U-------GCUAACUAGCGA---GCAAAGUUCGGCAGAGUUCGCCGA
(((((.((((((((.....)))).(((......)))....(((((.....)))))..(((-------(-------(((....)))))---))..)))).))))).......... ( -35.60)
>DroSec_CAF1 4335 96 - 1
CUGCUUAGCUGGGCAAAUAGCCCAUGGAUACACCCAAUAUAGACGGGUUACGUCCUCGU--------U-------GCUAACUGGCGA---GCAAAGUUCGGCAGAGUUCCCCGA
....((((((((((.....))))).((((..((((.........))))...))))....--------.-------)))))(((.(((---((...))))).))).......... ( -31.20)
>DroSim_CAF1 4195 97 - 1
CUGCUUAGCUGGGCAAAUAGCCCAUGGAUACACCCAAUAUAGACGGGUUACGUCCUCGUU-------U-------GCUAACUGGCGA---GCAAAGUUCGGCAGAGUUCGCCGA
(((((.((((((((.....))))..((((..((((.........))))...))))..(((-------(-------(((....)))))---))..)))).))))).......... ( -34.10)
>DroEre_CAF1 10787 97 - 1
CUGCUUAGCUGGGCAAACAGCCCGUGGAUACAGUCAAUAUGAACGGGUCACGUCCUAGUU-------U-------GCUAACUAGCGA---GCAAAGUUCCGCAGAGUUCGUGGA
.(((((.(((((((((((((..(((((...(..((.....))..)..)))))..)).)))-------)-------))...)))))))---)))....(((((.......))))) ( -32.00)
>DroYak_CAF1 4329 84 - 1
CUGCUUAGCUGGGCAAAUAGCCCGUGGAUACAGUCAAUAUGGACG-------------UU-------C-------GCUAACUAGCGA---GCAAAGUUCCGCAGAGUUCGCAGA
((((..((((((((.....))))(((((.((.(((......)))(-------------((-------(-------(((....)))))---))...)))))))..)))).)))). ( -35.50)
>DroAna_CAF1 5867 113 - 1
CCGCUUAGCUCGGCAAAUAUUCGAUUUAUACUGUCAAUACCG-CGGGUUGCGUCUUAGUUGUUAGUUUACUGCCAGGUAACUGGCGACUAGUAAAGCUCCCCAGAGUUCACAGA
......(((((.((...((((.(((.......)))))))..)-)(((..((...(((((((((((((.(((....))))))))))))))))....))..))).)))))...... ( -31.80)
>consensus
CUGCUUAGCUGGGCAAAUAGCCCAUGGAUACACCCAAUAUGGACGGGUUACGUCCUCGUU_______U_______GCUAACUAGCGA___GCAAAGUUCCGCAGAGUUCGCCGA
.(((((((((((((.....))))).................((((.....)))).....................))))...))))...........(((((.......))))) (-16.22 = -17.08 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:21 2006