Locus 1371

Sequence ID 3R_DroMel_CAF1
Location 4,007,398 – 4,007,488
Length 90
Max. P 0.870688
window2261

overview

Window 1

Location 4,007,398 – 4,007,488
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 95.48
Mean single sequence MFE -19.73
Consensus MFE -19.06
Energy contribution -19.62
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.97
SVM decision value 0.87
SVM RNA-class probability 0.870688
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4007398 90 - 27905053
CACCACAACAACAACAACAACCGGUUACCUGCCCUGCACACACAAAAAAACACGCCCCUCUCACGUUCGGUAAGAGAAAGUGUGACAGGC
....................(((((.....))).................(((((..((((.((.....)).))))...)))))...)). ( -14.20)
>DroSec_CAF1 12944 87 - 1
CGCCACAACAA---CAACAACCGGUUACCUGCCCUGCACACACAAAAAAACACGCCCCUCUCGCGUUCGGUGAGAGAAAGUGUGACAGGC
.(((.......---........(((.....))).................(((((..(((((((.....)))))))...)))))...))) ( -22.80)
>DroSim_CAF1 13529 87 - 1
CGCCACAACAA---CAACAACCGGUUACCUGCCCUGCACACACAAAAAAACACGCCCCUCUCGCGUUCGGUGAGAGAAAGUGUGACAGGC
.(((.......---........(((.....))).................(((((..(((((((.....)))))))...)))))...))) ( -22.80)
>DroYak_CAF1 12957 87 - 1
UGCCACAACAA---CAACAACCGGUUACCUGCCCUGCACACACAAAAAAACACGCCCCUCUCGCGUUCGAUGAGAGAAAGUGUGACAGGC
.(((.......---........(((.....))).................(((((..(((((((....).))))))...)))))...))) ( -19.10)
>consensus
CGCCACAACAA___CAACAACCGGUUACCUGCCCUGCACACACAAAAAAACACGCCCCUCUCGCGUUCGGUGAGAGAAAGUGUGACAGGC
.(((..................(((.....))).................(((((..(((((((.....)))))))...)))))...))) (-19.06 = -19.62 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:24 2006