Locus 6229

Sequence ID 3L_DroMel_CAF1
Location 16,552,934 – 16,553,054
Length 120
Max. P 0.648821
window9994

overview

Window 4

Location 16,552,934 – 16,553,054
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.92
Mean single sequence MFE -32.72
Consensus MFE -29.06
Energy contribution -28.42
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -1.26
Structure conservation index 0.89
SVM decision value 0.24
SVM RNA-class probability 0.648821
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16552934 120 + 23771897
UACUGGCCAAGUCGGCACUGGACUACGCACUGUUGAAUGGGCACUUCAUUAUUAUAAGGUGUCGGUUUGUCCAGCACUACAUCGACAAGUAUGAGCCGCAAUACGCCAAGUACAUAUUAA
(((((((.....((((.((((((...........((((.(((((((.((....)).))))))).))))))))))((.(((........))))).))))......))).))))........ ( -31.70)
>DroSec_CAF1 5889 120 + 1
UACUGGCCAAGUCGGCACUGGACUACGCACUGCUAAAUGGACACUUCAUUAUUAUAAGGUGCCGAUUUGUCCAGCACUACAUCGACAAGUAUGAGCCGCAAUACGCCAAGUACAUAAUAA
..((((.((((((((((((.......((...))..((((((...)))))).......)))))))))))).))))..............((((..((........))...))))....... ( -30.80)
>DroSim_CAF1 5820 120 + 1
UACUGGCCAAGUCGGCACUGGACUACGCACUGCUGAAUGGACACUUCAUUAUUAUAAGGUGCCGAUUUGUCCAGCACUACAUCGACAAGUAUGAGCCGCAAUACGCCAAGUACAUAAUAA
(((((((.....((((.((((((...(((((....((((((...)))))).......)))))......))))))((.(((........))))).))))......))).))))........ ( -31.00)
>DroEre_CAF1 7140 120 + 1
UACUGGCCAAGGCGGCACUGGACUACGCGCUACUGAACGGGCAAUUCAUUGUGAUCAAGUGCCGGUUUGUCCAGUACUACAUCGACAAAUAUGAGCCACAAUACGCCAAGUACAUACUGA
(((((((....(.((((((((((...........((((.((((.....(((....))).)))).)))))))))))....(((........))).))).).....))).))))........ ( -32.00)
>DroYak_CAF1 6047 120 + 1
UACUGGCCAAGGCGGCACUGGACUACGCACUGCUCAACGGGCAAUUCAUUGUUAUCAAGUGCCGGUUUGUCCAGUACUACAUCGACAAAUAUGAGCCGCAAUACGCCGAGUACAUACUGA
(((((((....((((((((((((.((((((((((.....)))).....(((....)))))))..))..)))))))....(((........))).))))).....))).))))........ ( -38.10)
>consensus
UACUGGCCAAGUCGGCACUGGACUACGCACUGCUGAAUGGGCACUUCAUUAUUAUAAGGUGCCGGUUUGUCCAGCACUACAUCGACAAGUAUGAGCCGCAAUACGCCAAGUACAUAAUAA
(((((((.....((((.((((((..((((((....(((((........)))))....)))).))....)))))).....(((........))).))))......)))).)))........ (-29.06 = -28.42 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:16 2006