Locus 8643

Sequence ID 3L_DroMel_CAF1
Location 22,441,521 – 22,441,641
Length 120
Max. P 0.526107
window14163

overview

Window 3

Location 22,441,521 – 22,441,641
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.08
Mean single sequence MFE -25.68
Consensus MFE -20.35
Energy contribution -20.91
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.39
Structure conservation index 0.79
SVM decision value -0.01
SVM RNA-class probability 0.526107
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22441521 120 - 23771897
AUUUGAAUAUCUCUUACCUCUCGCCAUAUCAAACUAAAAGCCACAAUCAGGCUGGGAGCCAAAUCAAAUAACCUAAUGUAUACUAUCUGGAGGCCUCGGUAAGCACUUAAGUGCUACACA
..............((((....(((........((...((((.......)))).))...............((..(((.....)))..)).)))...))))(((((....)))))..... ( -22.20)
>DroSec_CAF1 13233 120 - 1
AUUUGCAUUUCUCUUACCUCUUGCCAUAUCCAACUAAAAGCCGCAAUCAGGCUGGGAGCCAAAUCAAAUAACCCAAUGUCGACUAUCUGGAGGCCUCGGUAAGCACUUAAGUGCUACACA
....((((((..((((((....(((...((((......((((.......))))(((...............))).............)))))))...)))))).....))))))...... ( -26.96)
>DroSim_CAF1 17787 120 - 1
AUUUGCAUUUCUCUUACCUCUUGCCAUAUCCAACUAAAAGCCGCAAUCAGGCUGGGAGCCAAAUCAAAUAACCCAAUGUCGACUAUCUGGAGGCCUCGGUAAGCACUUAAGUGCUACACA
....((((((..((((((....(((...((((......((((.......))))(((...............))).............)))))))...)))))).....))))))...... ( -26.96)
>DroEre_CAF1 20504 109 - 1
AUU-----------UACCACUUACCAUCUCCAACUAAAAGCGGCAAUUAGGCUGGGAGCUAAAUCACAUAGCCCAAUAUUGAAUACCUGGAGGCCUCGGUAAGCACUUAAGUGCUCCACA
...-----------......(((((.((((((........((((......))))((.((((.......)))))).............))))))....)))))((((....))))...... ( -26.60)
>consensus
AUUUGCAUUUCUCUUACCUCUUGCCAUAUCCAACUAAAAGCCGCAAUCAGGCUGGGAGCCAAAUCAAAUAACCCAAUGUCGACUAUCUGGAGGCCUCGGUAAGCACUUAAGUGCUACACA
..............((((....(((...((((......((((.......))))(((...............))).............)))))))...))))(((((....)))))..... (-20.35 = -20.91 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:10 2006