Locus 1272

Sequence ID 2R_DroMel_CAF1
Location 4,971,398 – 4,971,501
Length 103
Max. P 0.795451
window2206

overview

Window 6

Location 4,971,398 – 4,971,501
Length 103
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 85.83
Mean single sequence MFE -34.87
Consensus MFE -23.09
Energy contribution -23.65
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -2.17
Structure conservation index 0.66
SVM decision value 0.60
SVM RNA-class probability 0.795451
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4971398 103 - 20766785
AGGCGUGCGAGCCUCGUUAUAGGUAACCGUAACUGUAACUG-UAACUGGUUACGGCGUACACACAUGCAUGCAGACACAUCCUUGUGUGCUUCAGUGUGUGUGU
....(((((.((((......))))..((((((((((.....-..)).)))))))))))))((((((((((..(((((((....))))).))...)))))))))) ( -37.20)
>DroSec_CAF1 36088 103 - 1
AGGCGUGCGAGCCUUGUUAUAGGUAACCGUAACUGUAACUG-UAACUGGUUACGUCGUACACACAUGCAUGCAGGCACAUCCUUGCGCGCUUCAGUGUGUGUGU
.((((((...(((..(((((((................)))-)))).))))))))).(((((((((((.((((((......)))))).))....))))))))). ( -34.89)
>DroSim_CAF1 38689 103 - 1
AGGCGUGCGAGCCUCGUUAUAGGUAACCGUAACUGUAACUG-UAACUGGUUACGUCGUACACACAUGCAUGCAGGCACAUCCUUGUGCGCUUCAGUGUGUGUGU
.((((((...(((..(((((((................)))-)))).)))))))))..((((((((((.((.(((((((....))))).)).)))))))))))) ( -38.09)
>DroYak_CAF1 40622 87 - 1
AGGCGUGCGAGCCUCGUUAUAGGUAACUGUAACUGUAACUGGUUACGGCGUAUGGCGUACACACAUGCAUGCAGACACAUCCUUGUG-----------------
..(((((((.(((..(((((((....))))))).((((....)))))))((.((.....)).)).)))))))...((((....))))----------------- ( -29.30)
>consensus
AGGCGUGCGAGCCUCGUUAUAGGUAACCGUAACUGUAACUG_UAACUGGUUACGGCGUACACACAUGCAUGCAGACACAUCCUUGUGCGCUUCAGUGUGUGUGU
..(((((((.((((......))))....(((..(((((((.......)))))))...))).....)))))))..(((((....)))))................ (-23.09 = -23.65 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:39 2006