Locus 1612

Sequence ID 2L_DroMel_CAF1
Location 4,338,797 – 4,338,887
Length 90
Max. P 0.549198
window2589

overview

Window 9

Location 4,338,797 – 4,338,887
Length 90
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 83.05
Mean single sequence MFE -27.32
Consensus MFE -16.44
Energy contribution -16.25
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.549198
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4338797 90 - 22407834
AUAG-----AGGAAAUCACACGUAAAAAGCCA---GCACGUGGUGGAGCACGG-----GCAGUUUUGCAGCUCAAU--AGAGUGUGGCGAAUGGCCGUUGAAGCA
....-----...................((((---((.((((......))))(-----((...(((((.((((...--.))))...)))))..)))))))..)). ( -25.50)
>DroSec_CAF1 7714 89 - 1
AAAG-----AGGAAAUCACACGUAAAAUGCCA---GCACGUGGUGGAGCACGG-----GCCGU-UUGCAGCUCAAU--AGAGGGCGGCGAAUGGCUGUUGAAGCA
....-----..................(((((---((.((((......))))(-----(((((-((((.((((...--...)))).))))))))))))))..))) ( -31.20)
>DroSim_CAF1 8329 92 - 1
AAAG-----AGGAAAUCACACGUAAAAAGCCAGCAGCACGUGGUGGAGCACGG-----GCAGU-UUGCAGCUCAAU--AGAGGGCGGCGAAUGGCUGUUGAAUCA
....-----.....................(((((((.((((......)))).-----...((-((((.((((...--...)))).)))))).)))))))..... ( -27.40)
>DroEre_CAF1 7774 102 - 1
AAAAAGGAAGAGAAAUCACACGUAAAAAGUCA---GCACGUGGUGGAGCACGGCAACUGCAAACUGGCAGCUCAAUAAAGAGGGUGGCGAAUGGCUGCUGAAGCG
.........((....))............(((---(((.((.((...((.((.(..((((......))))(((......)))).))))..)).)))))))).... ( -25.20)
>consensus
AAAG_____AGGAAAUCACACGUAAAAAGCCA___GCACGUGGUGGAGCACGG_____GCAGU_UUGCAGCUCAAU__AGAGGGCGGCGAAUGGCUGUUGAAGCA
............................((((...((.((((......))))......((......)).((((........)))).))...)))).......... (-16.44 = -16.25 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:40 2006