Locus 4409

Sequence ID 2L_DroMel_CAF1
Location 12,688,229 – 12,688,322
Length 93
Max. P 0.834981
window6946

overview

Window 6

Location 12,688,229 – 12,688,322
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 80.44
Mean single sequence MFE -19.02
Consensus MFE -14.12
Energy contribution -14.78
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.74
SVM decision value 0.73
SVM RNA-class probability 0.834981
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12688229 93 - 22407834
GACCGAAAUGCUUAUCAAGAAUAGAAAUGCUGAAGCAAAAGCAUAAAGGAAACUUAAUUUUCGUUAGUCCUGCCAAGUGGCGAGUGAUUAAUG
....(((((((((.((.......))..(((....))).)))))).(((....)))....)))((((((((((((....))).)).))))))). ( -22.60)
>DroSec_CAF1 68737 75 - 1
------------------GAAUAGAAAUGCCAGAGCAAAAGCAUAAAGGAAACUUAAUUUUCGUUAGUCCUGCCAAGUGGCAAGUGAUUAAUG
------------------.....(((((((....)))........(((....)))...))))((((((((((((....))).)).))))))). ( -17.90)
>DroSim_CAF1 70713 75 - 1
------------------GAAUAGAAAUGCCGGAGCAAAAGCAUAAAGGAAACUUAAUUUUCGUUAGUCCUGCCAAGUGGCGAGUGAUUAAUG
------------------.....(((((((....)))........(((....)))...))))((((((((((((....))).)).))))))). ( -17.90)
>DroEre_CAF1 70598 93 - 1
CACCGAAAUGAGCAACAAGAAUAGAAAUGCUGCAGCAAAAGCAUAAAGGAAACUUAAUUUUCGUUAGUCCUGCCAAGUGGCGAGUGAUUAAUG
....((((..................(((((........))))).(((....)))...))))((((((((((((....))).)).))))))). ( -21.50)
>DroYak_CAF1 71553 93 - 1
CACCGAAGUGAGCAUCAAGAAUAGAAAUGCUGGAGCGAAAGCAUAAAGGAAGCUUAAUUUUCGUUAGUCCUGCCAAGUGGCGAGUGAUUAAUG
....(((.(((((.((.....(((.....)))..((....))......)).)))))...)))((((((((((((....))).)).))))))). ( -24.10)
>DroAna_CAF1 60109 86 - 1
CUCCU-----AGGAAC-AGACUAGAAAAA-AAUAGCAAAAGCACAAAAGAAACUUAAUUUUCGUUACUCCUGCCAAGUGAAGAGUGAUUAAUG
...((-----((....-...)))).....-....((....))......((((......))))(((((((............)))))))..... ( -10.10)
>consensus
CACCG_____AG_A_C_AGAAUAGAAAUGCUGGAGCAAAAGCAUAAAGGAAACUUAAUUUUCGUUAGUCCUGCCAAGUGGCGAGUGAUUAAUG
.......................((((.......((....))...(((....)))...))))((((((((((((....))).)).))))))). (-14.12 = -14.78 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:10 2006