Locus 3494

Sequence ID 2R_DroMel_CAF1
Location 11,716,539 – 11,716,644
Length 105
Max. P 0.713837
window5694

overview

Window 4

Location 11,716,539 – 11,716,644
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 84.00
Mean single sequence MFE -36.30
Consensus MFE -26.93
Energy contribution -26.77
Covariance contribution -0.16
Combinations/Pair 1.30
Mean z-score -2.27
Structure conservation index 0.74
SVM decision value 0.38
SVM RNA-class probability 0.713837
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11716539 105 + 20766785
GGAGUAGCGAACCAGAAAGCAGCCGGAGGUGUCUACUUCAGGUUGCUUGGCCAAUAGCUCCUUGGCAUGCUUUUUUAGUAUGGCUACUGCCUCUUCUCUGGUCAG
((((((((...((((.((((((((.(((((....))))).))))))))(((.....)))..))))((((((.....)))))))))))).)).............. ( -37.10)
>DroSec_CAF1 1927 105 + 1
GGAAUAGCGAACCAGAAAGCAACCGGAGGUAUCCACUUCCGGUUGUUUGGCUAAUAACUCCUUGGCAUGUUUUUUUAGUAUGGCUACGGCCUCGUCUCUGGUCAG
........((.(((((((((((((((((((....)))))))))))))).(((((.......)))))...............(((....))).....))))))).. ( -38.90)
>DroSim_CAF1 2609 105 + 1
GGAAUAGCGAACCAGAAAGCAACCGGAGGUAUCCACUUCCGGUUGUUUAGCUAAUAACUCCUUGGCAUGCUUUUUUAGUAUGGCUACGGCCUCGUCUCUGGUCAG
........((.(((((((((((((((((((....)))))))))))))).(((((.......)))))(((((.....)))))(((....))).....))))))).. ( -41.10)
>DroEre_CAF1 1947 105 + 1
GGAGUAGCGAACCAGAAAGCAGCCGGAGGUGUCAGCUUCCGGCUGUUUGGCUAAUAACUUCUUGGCAUGCUUUUUUAGUAUGGCCACGGCUUCGUCUCUGGUUAG
((((..(((((((((.((((((((((((((....))))))))))))))..))..........(((((((((.....))))).)))).)).)))))))))...... ( -44.80)
>DroYak_CAF1 1956 105 + 1
GGAGUAGCGAACCAGAAAGCAGCCGGAGGUGUCAAUGUCAGGUUGUUUGACUAAUAACUUCUUGGCAUGCUUUUGUAGUAUGGCCACGGCUUCGUCUCUGGUUAG
.........(((((((..(.((((((((((......(((((.....))))).....))))).(((((((((.....))))).))))))))).)...))))))).. ( -36.40)
>DroAna_CAF1 1961 105 + 1
AGAAUAGCGAACCAGAAAGCAACCUGAGGUAUCUAUUUGCGGAUUCUUGGACUCUAAUUCCUUAGCAAACUUCUUGAGAUUGGCCACGGCCUCUUCCCUGGAUUG
.......(((.((((...((.....((((.((((......))))))))(((.......)))...)).........((((..(((....)))))))..)))).))) ( -19.50)
>consensus
GGAAUAGCGAACCAGAAAGCAACCGGAGGUAUCAACUUCCGGUUGUUUGGCUAAUAACUCCUUGGCAUGCUUUUUUAGUAUGGCCACGGCCUCGUCUCUGGUCAG
..........((((((((((((((.(((((....))))).))))))))...........((.(((((((((.....))))).)))).)).......))))))... (-26.93 = -26.77 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:53 2006