Locus 4094

Sequence ID 3R_DroMel_CAF1
Location 11,176,959 – 11,177,055
Length 96
Max. P 0.600960
window6556

overview

Window 6

Location 11,176,959 – 11,177,055
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.14
Mean single sequence MFE -15.28
Consensus MFE -9.44
Energy contribution -9.63
Covariance contribution 0.20
Combinations/Pair 1.21
Mean z-score -1.60
Structure conservation index 0.62
SVM decision value 0.14
SVM RNA-class probability 0.600960
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11176959 96 + 27905053
AGGGGGUGUUUGGACAAAAACACAACAA--AAAAUGUAUACAAAACAAUUCC--GAUUAAAAUUCGCAGAAUAAGUGAAUUAAAC-UUGAACAAUUGACAA
..(..((((((......))))))..)..--...............(((((.(--((....(((((((.......)))))))....-)))...))))).... ( -14.60)
>DroPse_CAF1 12936 96 + 1
UGUGGGUGG-----GAGAGCCACAACAAAAAAAAUGUAUACAAACCGCCGCAAACAGUAAAUUUCCAUUAAAAAGUGAAUUAAAGCUCGCAAAAAUAUCAA
(((((((((-----.....)))).(((.......)))..........)))))......................((((........))))........... ( -13.90)
>DroSec_CAF1 8293 96 + 1
AGGGGGUGUUUGGACAAAAACACAACAA--AAAAUGUAUACAAAACAACUCC--GAUUGAAAUUCGCAGAAUAAGUGAAUUAAAC-UUGAACAAUUGACAA
.((((((((((......)))))).(((.--....)))...........))))--......(((((((.......)))))))....-............... ( -16.80)
>DroSim_CAF1 7982 96 + 1
AGGGGGUGUUUGGACAAAAACACAACAA--AAAAUGUAUACAAAACAACUCC--GAUUAAAAUUCGCAGAAUUAGUGAAUUAAAC-UUAAAAAAUUGACAA
.((((((((((......)))))).(((.--....)))...........))))--......(((((((.......)))))))....-............... ( -16.80)
>DroEre_CAF1 7119 96 + 1
AGGGGGUGUUUGGCCAGAAACACAACAA--AAAAUGUAUACAAAAGAACUCC--GAUUAAAAUUCGCAAAUUAAGUGAAUUAAAC-UUGACUAAACGUUAA
.((((((((((......)))))).(((.--....)))...........))))--......(((((((.......)))))))....-.((((.....)))). ( -16.90)
>DroYak_CAF1 6970 96 + 1
AGGGGGUGUUUGGCCAGAAGCACAACAA--AAAAUGUAUACAAAACAACUCG--GAUUAAAAUUCGCGAAAUACUUGAAUUAAAC-UUGACCAAACGAGAA
...((((((((.((..........(((.--....)))..............(--(((....)))))).))))))))........(-(((......)))).. ( -12.70)
>consensus
AGGGGGUGUUUGGACAAAAACACAACAA__AAAAUGUAUACAAAACAACUCC__GAUUAAAAUUCGCAGAAUAAGUGAAUUAAAC_UUGAACAAAUGACAA
.(((.((((((......)))))).(((.......)))...........))).........(((((((.......))))))).................... ( -9.44 =  -9.63 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:58 2006