Locus 9834

Sequence ID 3R_DroMel_CAF1
Location 26,161,644 – 26,161,742
Length 98
Max. P 0.627503
window15705

overview

Window 5

Location 26,161,644 – 26,161,742
Length 98
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 86.61
Mean single sequence MFE -32.16
Consensus MFE -22.40
Energy contribution -22.60
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.70
SVM decision value 0.19
SVM RNA-class probability 0.627503
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26161644 98 - 27905053
GGGGGCGGGGG-GGGGGGGCAAAGGAGGAG---CCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUGCAAAUUGGGUCGUA
...((((((((-(((..(((.........)---))..).....((((......))))....)))))))....(((((((((....)))))))))..)))... ( -36.30)
>DroSec_CAF1 144201 89 - 1
UUGG-----------GGGGC--AGGAGGAGUCACCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUGCAAAUUGGGUCGUA
((((-----------((((.--..((((.....)).)).....((((......)))).....))))))))..(((((((((....)))))))))........ ( -30.30)
>DroSim_CAF1 149893 89 - 1
UUGG-----------GGGGC--AGGAGGAGCCACCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUGCAAAUUGGGUCGUA
((((-----------((((.--.((.(....).))........((((......)))).....))))))))..(((((((((....)))))))))........ ( -31.20)
>DroEre_CAF1 153620 97 - 1
GGGGGUUGGCGAUUGGGGGC--UGGAGGAG---CCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUGCAAAUUGGGUCGUA
(((((((..((.(((..(((--(.....))---))..))))..((((......))))).)))))))(((....((((((((....)))))))))))...... ( -32.90)
>DroYak_CAF1 152677 97 - 1
GCGAGUUGGGGUUUGGGGGC--UGGAGGAG---CCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUUCAAAUUGGGUCGUA
((((...((((((((..(((--(.....))---))..).....((((......)))).)))))))(((((.(((...(((...))))))...))))))))). ( -30.10)
>consensus
GGGGG__GG_G___GGGGGC__AGGAGGAG___CCAUCAACAAGUAGAAAUAGCUGCGAAAUCCCCCCAAGGAAUUUGCGGUUCGCUGCAAAUUGGGUCGUA
...............((((....(((((.....))........((((......))))....)))))))....(((((((((....)))))))))........ (-22.40 = -22.60 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:14 2006