Locus 3907

Sequence ID X_DroMel_CAF1
Location 10,458,922 – 10,459,016
Length 94
Max. P 0.819901
window6410

overview

Window 0

Location 10,458,922 – 10,459,016
Length 94
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 92.15
Mean single sequence MFE -36.70
Consensus MFE -27.89
Energy contribution -28.45
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.51
Structure conservation index 0.76
SVM decision value 0.68
SVM RNA-class probability 0.819901
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10458922 94 + 22224390
CCACCCCGCCACCCCCAUCGCGUUUCUUUGACCGCAGAGAGAGCGAGCAUGCUCCUGGUUCCAGUUCCAUCAUCUGACGA---UGGGGGUUCGGCAC
.......((((((((((((((.((((((((....))))))))))(((....)))(((....)))..............))---)))))))..))).. ( -38.00)
>DroSec_CAF1 3355 92 + 1
--ACCCCGCCACCCCCAUCGCGCUACUUUGACCGCAGAGAGAGCGAGCAUGCUCCUGGUUCCAGUUCCAUCAUCUGACGA---UGGGGGUUCGGCAC
--.....(((((((((((((((((.(((((....)))))..)))).(.(((...(((....)))...))))......)))---)))))))..))).. ( -36.90)
>DroSim_CAF1 3325 94 + 1
CCACCCCGCCACCCCCAUCGCGCUACUUUGACCGCAGAGAGAGCGAGCAUGCUCCUGGUUCCAGUUCCAUCAUCUGACGA---UGGGGGUUCGGCAC
.......(((((((((((((((((.(((((....)))))..)))).(.(((...(((....)))...))))......)))---)))))))..))).. ( -36.90)
>DroYak_CAF1 3274 95 + 1
UCAGCCAACCACCCCCAUCGCGCUUCUUUGACCGCAGA--GAGCGAGCAGACUCCUGGUUCCAGUUCCAUCAUCUGACGACGUUGGGGGUUCGGCAC
...(((....(((((((.((((((.(((((....))))--))))).(((((....(((........)))...)))).)..)).)))))))..))).. ( -35.00)
>consensus
CCACCCCGCCACCCCCAUCGCGCUACUUUGACCGCAGAGAGAGCGAGCAUGCUCCUGGUUCCAGUUCCAUCAUCUGACGA___UGGGGGUUCGGCAC
.......((((((((((((((.((.(((((....))))))).))))........(((....)))...................)))))))..))).. (-27.89 = -28.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:25 2006