Locus 1051

Sequence ID 2R_DroMel_CAF1
Location 4,312,834 – 4,312,931
Length 97
Max. P 0.999083
window1858

overview

Window 8

Location 4,312,834 – 4,312,931
Length 97
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 79.39
Mean single sequence MFE -48.36
Consensus MFE -30.10
Energy contribution -32.97
Covariance contribution 2.87
Combinations/Pair 1.08
Mean z-score -3.41
Structure conservation index 0.62
SVM decision value 3.36
SVM RNA-class probability 0.999083
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4312834 97 - 20766785
UGGAGCGCAGACUAUGGACUAUGGACUGUGUGGCGGUCCGUGGUCGGUCCGU--------------GGCUCGUUAAGCCAAGUAGCCGAGUCUGGGCCAAACAUGGGCGUU
...(((((...(((((((((((((((((.....))))))))))))((((((.--------------((((((....((......))))))))))))))...)))))))))) ( -47.90)
>DroSec_CAF1 68004 111 - 1
UGGAACGCGGACUAUGGACUGUGGACUGUGUGGCGGUCCGUGGUCGGUCCGUGGCUCAUGGCCCGUGGCUCGUUAAGCCAAGUAGCCGAGUCUGGGCCAAACAUGGGCGUU
.....((((((((...(((..(((((((.....)))))))..)))))))))))((((((((((((.((((((....((......)))))))))))))))....)))))... ( -59.10)
>DroSim_CAF1 71468 111 - 1
UGGAGCGCGGACUAUGGACUGUGGACUGUGUGGCGGUCCGUGGUCGGUCCGUGGCUCAUGGCCCGUGGCUCGUUAAGCCAAGUAGCCGAGUCUGGGCCAAACAUGGGCGUU
.....((((((((...(((..(((((((.....)))))))..)))))))))))((((((((((((.((((((....((......)))))))))))))))....)))))... ( -58.80)
>DroYak_CAF1 69287 79 - 1
UGGAGCGCGGACU-------AUGGACUGUGUGGUGGUC-------------------------CGUGGCUCGUUAAGCCAAGUAGCCGAGUCUGGGCAAAAAAUGGGCGUU
..(((((((((((-------((.(......).))))))-------------------------))).)))).....(((.....(((.......)))........)))... ( -27.62)
>consensus
UGGAGCGCGGACUAUGGACUAUGGACUGUGUGGCGGUCCGUGGUCGGUCCGU___________CGUGGCUCGUUAAGCCAAGUAGCCGAGUCUGGGCCAAACAUGGGCGUU
...(((((...(((((((((((((((((.....))))))))))))(((((..(((.....)))...((((((....((......)))))))).)))))...)))))))))) (-30.10 = -32.97 +   2.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:10 2006