Locus 3453

Sequence ID 2R_DroMel_CAF1
Location 11,609,821 – 11,609,920
Length 99
Max. P 0.655761
window5637

overview

Window 7

Location 11,609,821 – 11,609,920
Length 99
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.02
Mean single sequence MFE -32.80
Consensus MFE -23.81
Energy contribution -23.88
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -1.65
Structure conservation index 0.73
SVM decision value 0.26
SVM RNA-class probability 0.655761
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11609821 99 + 20766785
GGUGCCAGGGGAGCACCUACAGGUUGGGGGCAUUGCUCCACUCCCCAGUACUUUGCACCACACUGGCCAAAAAAUUG----------AAAUUGAAACUCUUUUAUGACC
(((((..((((((.(((....)))..(((((...))))).))))))((....)))))))..................----------...................... ( -25.90)
>DroSec_CAF1 7725 99 + 1
GGUGCCAGGGGAGCACCUACAGGUUGGGGGCAUUGCUCCACUCCCCAGUACUUUGCACCACACUGGCCAAAAAGUUG----------AAGUCGAACUUCUUUUAUGGCC
(((((..((((((.(((....)))..(((((...))))).))))))((....))))))).....(((((.((((..(----------(((.....)))))))).))))) ( -37.10)
>DroSim_CAF1 7828 99 + 1
GGUGCCAGGGGAGCACCUACAGGUUGGGGGCAUUGCUCCACUCCCCAGUACUUUGCACCACACUGGCCAAAAAGUUG----------AAGUCGAACUUCUUUUAUGGCC
(((((..((((((.(((....)))..(((((...))))).))))))((....))))))).....(((((.((((..(----------(((.....)))))))).))))) ( -37.10)
>DroEre_CAF1 7863 105 + 1
GGAGCCAAGGGAGCACCUACUGGCUGGGGGCAUUGCUCCUCUCCCCAGUACUUUGCACCACACUGGCCAAAAAAUCGAUGUUUCUAUAGGUCGAACUUCUUUUAU----
.(.((((..((.(((..((((((..((((((...))))))....))))))...))).))....)))))......(((((.(......).)))))...........---- ( -31.10)
>consensus
GGUGCCAGGGGAGCACCUACAGGUUGGGGGCAUUGCUCCACUCCCCAGUACUUUGCACCACACUGGCCAAAAAAUUG__________AAGUCGAACUUCUUUUAUGGCC
.(.(((((.((.(((((....))(((((((...........))))))).....))).))...))))))......................................... (-23.81 = -23.88 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:57 2006