Locus 5548

Sequence ID 3L_DroMel_CAF1
Location 15,234,852 – 15,234,955
Length 103
Max. P 0.935376
window8770

overview

Window 0

Location 15,234,852 – 15,234,955
Length 103
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 97.67
Mean single sequence MFE -30.16
Consensus MFE -28.96
Energy contribution -28.84
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -1.46
Structure conservation index 0.96
SVM decision value 1.24
SVM RNA-class probability 0.935376
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15234852 103 + 23771897
AUAAGCAACCGGGAGGAUGCGAGUCACAAGGACAAAGGACCCCAAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCCGAAGUG
....(((.((....)).)))(..((((..((......(((((.....(....).....)))))...(((((.....)))))....))...))))..)...... ( -30.30)
>DroSec_CAF1 124257 103 + 1
AUAAGCAACCGGGAGGAUGCGAGUCACAAGGACAAAGGACCCCGAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCCGAAGUG
....(((.((....)).)))(..((((..((......(((((.((..(....)...)))))))...(((((.....)))))....))...))))..)...... ( -30.80)
>DroSim_CAF1 132118 103 + 1
AUAAGCAACCGGGAGGAUGCGAGUCACAAGGACAAAGGACCCCAAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCCGAAGUG
....(((.((....)).)))(..((((..((......(((((.....(....).....)))))...(((((.....)))))....))...))))..)...... ( -30.30)
>DroEre_CAF1 124282 102 + 1
AUAAGCAACCGGGAGGAUGCGAGUCACAAGGACAAAGGACC-CAAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCCGAACUG
....(((.((....)).)))(..((((..((......((((-(....(....).....)))))...(((((.....)))))....))...))))..)...... ( -29.90)
>DroYak_CAF1 129952 103 + 1
AUAAGCAACCGGGAGGAUGCGAGUCGCAAGGACAAAGGACCCCAAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCAGAGGUG
....(((.((....)).)))...((((..((......(((((.....(....).....)))))...(((((.....)))))....))...))))......... ( -29.50)
>consensus
AUAAGCAACCGGGAGGAUGCGAGUCACAAGGACAAAGGACCCCAAGGCGGAAGAAGUCGGGUCAAGGGAGAGUUUAUUUCCGCAACCGAAGUGAGCCGAAGUG
....(((.((....)).)))...((((..((......(((((.(...(....)...).)))))...(((((.....)))))....))...))))......... (-28.96 = -28.84 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:01 2006