Locus 6440

Sequence ID 2R_DroMel_CAF1
Location 20,107,628 – 20,107,720
Length 92
Max. P 0.829316
window10276

overview

Window 6

Location 20,107,628 – 20,107,720
Length 92
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 75.99
Mean single sequence MFE -21.72
Consensus MFE -13.12
Energy contribution -13.82
Covariance contribution 0.69
Combinations/Pair 1.17
Mean z-score -1.66
Structure conservation index 0.60
SVM decision value 0.71
SVM RNA-class probability 0.829316
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20107628 92 - 20766785
CCACCUUCUCGUCCUCGUCGUCGUCCUCCGGCGGAGAGGAGGCUCCCUUGGUCAGCAACUCCUCCAGUUUCAUUGU-------------UUUUGUUUACACACUG
(((......(.(((((..(((((.....)))))..))))).)......))).............((((.....(((-------------........))).)))) ( -20.10)
>DroPse_CAF1 8330 92 - 1
CCGCCUUCUCAUCUUCGUCGUCUUCCUCCUGCGGCGACGACGAACCCUUCGUCAAGAGAUCUUCCAUUUUCAUUAU-------------UUAUUGUUCCUUUUAA
......((((......((((((..........))))))(((((.....)))))..)))).................-------------................ ( -18.50)
>DroEre_CAF1 10384 92 - 1
CCACCUUCUCGUCCUCGUCGUCGUCCUCCGGCGGAGAGGAGGAUCCCUUGGUCAGCAACUCCUCCAGUUUCAUUGU-------------UUUUGUUUACACACUG
(((.....((.(((((..(((((.....)))))..))))).)).....))).............((((.....(((-------------........))).)))) ( -22.00)
>DroYak_CAF1 10296 92 - 1
CCACCUUCUCGUCCUCGUCGUCGUCCUCCGGCGGCGAGGAGGAUCCCUUGGUCAGCAACUCCUCCAGUUUCAUUGU-------------UUUUGUUUACACACUG
(((.....((.((((((((((((.....)))))))))))).)).....))).............((((.....(((-------------........))).)))) ( -27.10)
>DroMoj_CAF1 13256 105 - 1
CCGCCUUUUCAUCGUCGUCGUCGUCUUCUUGCGGCGACGGUGCACCCUUUGUCAAGAGCUCCUCCAGUUUCAUUACGAUUUGGAAUUUUUAUUGUUUAUGUAUUG
.........(((((((((((.((......)))))))))))))..........((.((((......(((((((........)))))))......)))).))..... ( -24.10)
>DroPer_CAF1 8328 92 - 1
CCGCCUUCUCAUCUUCGUCGUCUUCCUCCUGCGGCGACGACGAACCCUUCGUCAAGAGAUCUUCCAUUUUCAUUAU-------------UUAUUGUUCCUUUUAA
......((((......((((((..........))))))(((((.....)))))..)))).................-------------................ ( -18.50)
>consensus
CCACCUUCUCAUCCUCGUCGUCGUCCUCCGGCGGCGACGAGGAACCCUUGGUCAACAACUCCUCCAGUUUCAUUAU_____________UUUUGUUUACACACUG
........((.((((((((((.........)))))))))).)).............................................................. (-13.12 = -13.82 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:06 2006