Locus 5650

Sequence ID 2R_DroMel_CAF1
Location 17,953,518 – 17,953,638
Length 120
Max. P 0.586535
window9057

overview

Window 7

Location 17,953,518 – 17,953,638
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.11
Mean single sequence MFE -38.27
Consensus MFE -30.77
Energy contribution -33.15
Covariance contribution 2.38
Combinations/Pair 1.06
Mean z-score -1.53
Structure conservation index 0.80
SVM decision value 0.11
SVM RNA-class probability 0.586535
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17953518 120 + 20766785
UAGAGCAAAAUUUAUGCAAAUGCCAACUGCAGAGGUGGUUGGAUUUGGCAGCAGGGUUGGCAAGGAGCGCUUUUCUCGGGGUGAGAUUUUGACUCCGAGCUUGAAUGCAUGGCGAACCUG
..............(((((((.(((((..(....)..))))))))).)))...(((((.((.....(((.((..((((((((.((...)).))))))))...)).)))...)).))))). ( -38.70)
>DroSec_CAF1 10787 120 + 1
UAGAGCAAAAUUUAUGCAAAUGCCAACUGCAGAGGUGGUUGGAUUUGGCAGCAGGGUUGGCAAGGAGCGCUUUUCUCGGGGGGAGAUUUUGACUCCGAGCUUGAAUGCAUGGCCAACCUG
..............(((((((.(((((..(....)..))))))))).)))...((((((((.....(((.((..(((((((...........)))))))...)).)))...)))))))). ( -41.90)
>DroSim_CAF1 6529 120 + 1
UAGAGCAAAAUUUAUGCAAAUGCCAACUGCAGAGGUGGUUGGAUUUGGCAGCAGGGUUGGCAAGGAGCGCUUUUCUCGGGGGGAGAUUUUGACUUCGAGCUUGAAUGCAUGGCCAACCUG
..............(((((((.(((((..(....)..))))))))).)))...((((((((.....(((.((..(((((((...........)))))))...)).)))...)))))))). ( -39.10)
>DroEre_CAF1 15532 105 + 1
UAGAGCAAAAUUUAUGCAAAUGCCAACUGCAGAGGUGGUUGGAUUUGGCAGCAGCG---------------UUUCUCGGGGGGAGAUUUCGACUCCGAGCUUAAAUGCAUGGCGAACCUG
....((........(((((((.(((((..(....)..))))))))).)))...(((---------------((((((((((...(....)..)))))))...))))))...))....... ( -33.40)
>consensus
UAGAGCAAAAUUUAUGCAAAUGCCAACUGCAGAGGUGGUUGGAUUUGGCAGCAGGGUUGGCAAGGAGCGCUUUUCUCGGGGGGAGAUUUUGACUCCGAGCUUGAAUGCAUGGCCAACCUG
..............(((((((.(((((..(....)..))))))))).)))...((((((((.....(((.((..(((((((...........)))))))...)).)))...)))))))). (-30.77 = -33.15 +   2.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:00 2006