Locus 1306

Sequence ID 2R_DroMel_CAF1
Location 5,068,056 – 5,068,159
Length 103
Max. P 0.533209
window2272

overview

Window 2

Location 5,068,056 – 5,068,159
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 89.11
Mean single sequence MFE -32.60
Consensus MFE -23.77
Energy contribution -24.52
Covariance contribution 0.75
Combinations/Pair 1.11
Mean z-score -1.51
Structure conservation index 0.73
SVM decision value -0.00
SVM RNA-class probability 0.533209
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5068056 103 + 20766785
UAAUUGUCAUUAAUCAGAGGCGUUUGUUUGCCUGGGAAAAAUGGAGAAGUGUGGAGGGGGGGGACCCGUCGGUCAGCUGACAUCUCCAUUCGGUCGGUAAUUA
(((((..(.....((..(((((......)))))..))........((.(.((((((((((....)))(((((....))))).))))))).)..)))..))))) ( -37.40)
>DroSec_CAF1 10882 102 + 1
CAAUUGUCAUUAAUCAGAGGCGUUUGUUUGCCUGGGAAAAAUUGAGGAGUGUGU-GGGGGGGCCCCCCUCGGUCAGCUGACAUCUCCAUUCGGGCGGUAAUUA
..((((((.....((..(((((......)))))..))........((((.((((-(((((....)))))(((....))))))))))).....))))))..... ( -32.90)
>DroSim_CAF1 11029 102 + 1
UAAUUGUCAUUAAUCAGAGGCGUUUGUUUGCCUGGGAAAAAUUGAGGAGUGUGU-GGUGGGGCUCCCCUUGGUCAGCUGACAUCUCCAUUCGGUCGGUAAUUA
(((((..(.....((..(((((......)))))..)).........(((((.(.-((((.((((..(....)..))))..)))).))))))....)..))))) ( -27.20)
>DroEre_CAF1 11163 99 + 1
UAAUUGUCAUUAAUCAGAGGCGUUCGUUUGCCUGGGAAAAAUGGAGGAGCAUGU-GGGGA---GCAUGUCGGUCAGCUGACAUCUCCAUUCGUUCGGUAAUUA
(((((..(.....((..(((((......)))))..)).........((((..((-(((((---...((((((....)))))))))))))..)))))..))))) ( -32.90)
>consensus
UAAUUGUCAUUAAUCAGAGGCGUUUGUUUGCCUGGGAAAAAUGGAGGAGUGUGU_GGGGGGGCACCCCUCGGUCAGCUGACAUCUCCAUUCGGUCGGUAAUUA
.((((..(.....((..(((((......)))))..))..((((((((.........(((((....))))).(((....))).)))))))).....)..)))). (-23.77 = -24.52 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:50 2006