Locus 7651

Sequence ID 3L_DroMel_CAF1
Location 20,566,997 – 20,567,114
Length 117
Max. P 0.523250
window12432

overview

Window 2

Location 20,566,997 – 20,567,114
Length 117
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 89.89
Mean single sequence MFE -46.12
Consensus MFE -36.88
Energy contribution -37.88
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.80
SVM decision value -0.02
SVM RNA-class probability 0.523250
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20566997 117 - 23771897
GCGUGUGAAAAGCUGCGCGCUUUUUGAUAAUUGCCACCGAGCUGCGUCCACGUCUGCGUCUGCGUUUCUGGCCAAGAAGCCGGACACGUUGGU--GCCUCGUGGAUGGCCAAGCAGCUG
..........((((((((((((..((........))..)))).))(((((((...((..(.((((.((((((......)))))).)))).)..--))..)))))))......)))))). ( -48.20)
>DroSec_CAF1 11800 111 - 1
GCGUGUGAAAAGCUGCGCGCUUUUUGAUAAUUGCCACCGAGCUACGUCCUCGUC------UGCGUUUCUGGCCAAGAAGCCGGACACGUUGCU--GUCUAGUGGAUGGCCAAGGAGCGG
((((((.....)).))))((((((((......((((((((((.((((....(((------((.((((((.....))))))))))))))).)))--......))).)))))))))))).. ( -39.30)
>DroSim_CAF1 5451 111 - 1
GCGUGUGAAAAGCUGCGCGCUUUUUGAUAAUUGCCACCGAGCUGCGUCCACGUC------UGCGUUUCUGGCCAAGAAGCCGGACACGUUGGU--GUCUCGUGGAUGGCCAAGGAGCUG
((((((.....)).))))((((((((......((......))..((((((((.(------.((((.((((((......)))))).))))....--)...))))))))..)))))))).. ( -41.10)
>DroEre_CAF1 5376 119 - 1
GCGUGUGAAAAGUUGCGCGCUUUUUGAUAAUUGCCACCGCGCUGCGUCCACGUCUGCGUCUGCGUUUCUGGCCAAGAAGCCGGACACGUUGGCCAGAAGCGCGGAUGGCCAAGGAGCUG
(((((........)))))((((((((......(((((((((((.((....))((((.(((.((((.((((((......)))))).)))).)))))))))))))).)))))))))))).. ( -55.90)
>consensus
GCGUGUGAAAAGCUGCGCGCUUUUUGAUAAUUGCCACCGAGCUGCGUCCACGUC______UGCGUUUCUGGCCAAGAAGCCGGACACGUUGGU__GUCUCGUGGAUGGCCAAGGAGCUG
(((((........)))))((((((((......((......))..((((((((.........((((.((((((......)))))).))))..........))))))))..)))))))).. (-36.88 = -37.88 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:44 2006