Locus 871

Sequence ID 3R_DroMel_CAF1
Location 2,931,373 – 2,931,466
Length 93
Max. P 0.508137
window1384

overview

Window 4

Location 2,931,373 – 2,931,466
Length 93
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 90.37
Mean single sequence MFE -27.72
Consensus MFE -19.51
Energy contribution -19.51
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.70
SVM decision value -0.05
SVM RNA-class probability 0.508137
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2931373 93 + 27905053
GGCGCAAAUGUGCCAUGCUGACUGUCUGUAUUGUACAAGGCCAGAAGAAGGAAACGACCCCG-GCCAGGAUACAAUGCGAUAUCCCAGGGAUAU
(((((....))))).(.(((..((((.(((((((((..((((.......(....)......)-)))..).))))))))))))...))).).... ( -31.52)
>DroSec_CAF1 11010 90 + 1
GGCGCAAAUGUGCCAUGCUGACU----GUAUUGCACAAGGCCAGAAGAAGGAAACGACCCCGGGCCAGGAUACAAUGCGAUAUCCCAGGGAUAU
..((((..(((((.((((.....----)))).))))).((((.......(....).......)))).........))))((((((...)))))) ( -29.94)
>DroSim_CAF1 10185 89 + 1
GGCGCAAAUGUGCCAUGCUGACU----GUAUUGCACAAGGCCAGAAGAAGGAAACGACCCCG-GCCAGGAUACAAUGCGAUAUCCCAGGGAUAU
..((((..(((((.((((.....----)))).))))).((((.......(....)......)-))).........))))((((((...)))))) ( -28.42)
>DroEre_CAF1 11597 82 + 1
GGCGCAAAUGUGCCAUGCUGACU----GUAUUGCACAAGGCCAGAAGAAGGAAGCGACCCGG-GCCAGGAUACAAUGCGAUAUCCCA-------
..((((..(((((.((((.....----)))).))))).((((.......(....)......)-))).........))))........------- ( -23.62)
>DroYak_CAF1 11094 82 + 1
GGCGCAAAUGUGCCAUGCUCACU----GUAUUGGACAAGGCCAGAAAAAGGAAACGACCCGG-GCCAGGAUACAAUGCGAUAUCCCA-------
(((((....)))))........(----((((((..(..((((.......(....)......)-)))..)...)))))))........------- ( -25.12)
>consensus
GGCGCAAAUGUGCCAUGCUGACU____GUAUUGCACAAGGCCAGAAGAAGGAAACGACCCCG_GCCAGGAUACAAUGCGAUAUCCCAGGGAUAU
(((((....))))).............((((((..(..(((........(....)........)))..)...))))))................ (-19.51 = -19.51 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:13 2006