Locus 2939

Sequence ID 3L_DroMel_CAF1
Location 8,396,135 – 8,396,233
Length 98
Max. P 0.885972
window4596

overview

Window 6

Location 8,396,135 – 8,396,233
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 97.04
Mean single sequence MFE -26.02
Consensus MFE -22.86
Energy contribution -25.06
Covariance contribution 2.20
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.88
SVM decision value 0.94
SVM RNA-class probability 0.885972
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8396135 98 + 23771897
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCAGUCGGCGACGGCAGAGCAGAGCAUCCAGCGCUGUUGUUGUU
....((..((......((..(.(((.(((....))).)))..)..)).((((((((.((((....))))...((...)).....))))))))))..)) ( -27.20)
>DroSec_CAF1 3322 98 + 1
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCAGUCGGCGACGGCAGAGCAAAGCAUCCAGCGCUGUUGUUGUU
....((..((......((..(.(((.(((....))).)))..)..)).((((((((.((((....))))...((...)).....))))))))))..)) ( -27.20)
>DroSim_CAF1 3293 98 + 1
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCUGUCGGCGCCGGCAGAGCAAAGCAUUCAGCGCUGUUGUUGUU
....((..((......((..(.(((.(((....))).)))..)..)).((((((((((...((....((...))...))...))))))))))))..)) ( -28.30)
>DroEre_CAF1 1335 98 + 1
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCAGUCGGCGCCGGCAGAGCAGAGCAUACAGCGAUGUUGUUGUU
....((..(((.....(((((.(((.(((....))).))).((((...(((......)))..)))).)))))(((..((.....))..))))))..)) ( -22.00)
>DroYak_CAF1 1438 98 + 1
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCAGUCGGCGGCGGCAGAGCAGAGCAUCCAGCGCUGUUGUUGUU
....((..((......((..(.(((.(((....))).)))..)..)).((((((((.....((.((......))...)).....))))))))))..)) ( -25.40)
>consensus
GACGAAUGGCAAAAAAUUUGCAAUGAAAAGAAAUUUAUAUGGGUGAAAGGCAGCGCAGUCGGCGACGGCAGAGCAGAGCAUCCAGCGCUGUUGUUGUU
....((..((......((..(.(((.(((....))).)))..)..)).((((((((.((((....))))...((...)).....))))))))))..)) (-22.86 = -25.06 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:40 2006