Locus 2659

Sequence ID X_DroMel_CAF1
Location 7,139,403 – 7,139,505
Length 102
Max. P 0.750885
window4355

overview

Window 5

Location 7,139,403 – 7,139,505
Length 102
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 79.63
Mean single sequence MFE -32.14
Consensus MFE -23.08
Energy contribution -23.32
Covariance contribution 0.24
Combinations/Pair 1.26
Mean z-score -1.67
Structure conservation index 0.72
SVM decision value 0.47
SVM RNA-class probability 0.750885
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7139403 102 + 22224390
GUGCGCGUUUGUUUGGCCUGCCUUUAUACAUGGUGAAUGCGUC--UGUGUGCAAGUGCACACCAAUGGCCACUUAAAUAGCACCCAAA--GAGUAGAAGUUUUCAA
((((..(((((..(((((.((.(((((.....))))).))...--.((((((....))))))....)))))..))))).)))).....--(((........))).. ( -31.60)
>DroSec_CAF1 7200 102 + 1
GUGCGCGUUUGUUUGGCCUGCCUUUAU--AUGGUGAAUCCGUCAAUGUGUGCAAGUGCACAGGAAAGGCCACUUAAAUAGCACCCAAA--CAGAAGGAGUUUCCAU
((((..(((((..((((((.((.....--((((.....)))).....(((((....)))))))..))))))..))))).)))).....--.....((.....)).. ( -31.70)
>DroSim_CAF1 1131 98 + 1
GUGCGCGUUUGUUUGGCCUGCCUUUAU--AUGGAGAAUGCGUCAAUGUGUGCAAGUGCACAGCAAAGGCCACUUGAAUAGCACCCAAA--CAGAA----UUUCCAA
((((..(((((..((((((((.(((..--.....))).)).....(((((((....))))).)).))))))..))))).)))).....--.....----....... ( -27.00)
>DroEre_CAF1 7344 104 + 1
GCCCGCGUUUGUUUGGCCUGCCUUUAU--AUGGUGAGUGCUUCAAUGUGUGCAAGCGCACAGCGCGGGGCACACAAAUAGCGCCCAAAGCCAAAAGCGGUCUCCGC
..((((.....((((((..(((.....--..)))(.(((((....(((((((..((((...))))...)))))))...))))).)...)))))).))))....... ( -41.70)
>DroYak_CAF1 6870 102 + 1
GUGCGCGUUUGUUUGGCCUGCCUUUAU--AUGGCGAACGCGUCAGUGUGUGCGAGCGCACACCAAAGGCCACAAAAAUAGUAACAAAA--CAAAAAAAUUACAGGG
.(((..((((...((((((........--.(((((....)))))(((((((....)))))))...))))))...)))).)))......--................ ( -28.70)
>consensus
GUGCGCGUUUGUUUGGCCUGCCUUUAU__AUGGUGAAUGCGUCAAUGUGUGCAAGUGCACAGCAAAGGCCACUUAAAUAGCACCCAAA__CAGAAGAAGUUUCCAA
((((..(((((..(((((((((.........))).............(((((....)))))....))))))..))))).))))....................... (-23.08 = -23.32 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:17 2006