Locus 5303

Sequence ID X_DroMel_CAF1
Location 13,871,009 – 13,871,124
Length 115
Max. P 0.692425
window8581

overview

Window 1

Location 13,871,009 – 13,871,124
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -28.85
Consensus MFE -21.42
Energy contribution -22.43
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.46
Structure conservation index 0.74
SVM decision value 0.33
SVM RNA-class probability 0.692425
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13871009 115 + 22224390
CCACCCA----CCGCCCACUUCUCGAAAGGAAAGUGAAAACUUUUCGCUAGCGAAAAAGUCGCGGAUGAAAUUUAAAACCAGUGAA-AACAGGAAAAUUCAAAUAAACGGAAGUAAACAA
.......----((((.(((((..(....)..))))).....((((((....))))))....)))).((((.(((....((.((...-.)).))))).)))).....((....))...... ( -27.30)
>DroSec_CAF1 16424 115 + 1
CCACCCA----CCGCCCACUUCUCGAAAGGAAAGUGAAAACUUUUCGCUAGCGAAAAAGUCGCGGAUGAAAUUUAAAACCAUUGAA-AUCAGGAAAAUUCAAAUAAACGGAAGGAAACAA
((..((.----((((.(((((..(....)..))))).....((((((....))))))....)))).((((.(((.......(((..-..))).))).)))).......))..))...... ( -26.10)
>DroEre_CAF1 14176 114 + 1
CCACCCA----CCGCCCACUUCUCGAAAGGAAAGUGAAAACUUUUCGCUGG-GAAAAAGUCGCGGAUGAAAUUUAAAACCAGUGAA-AACAGGAAAAUUCAAAUAAAUGCAAGGAAACAA
.......----((...(((((..(....)..))))).....((((((((((-....((((..(....)..))))....))))))))-))..))...................(....).. ( -26.10)
>DroYak_CAF1 16761 120 + 1
CCACCCAACCGCCGCCCACUUCUCGAAAGGAAAGUGAAAACUUUUCGCUGGCGAAAAAGUCGCGGAUGAAAUUUAAAACCAGUGAACCACUGGAAAAUUCAAAUAAAUGGAAGGAAACUA
....(((.((((.((.(((((..(....)..))))).....((((((....)))))).)).)))).((((.(((....((((((...))))))))).))))......))).((....)). ( -35.90)
>consensus
CCACCCA____CCGCCCACUUCUCGAAAGGAAAGUGAAAACUUUUCGCUAGCGAAAAAGUCGCGGAUGAAAUUUAAAACCAGUGAA_AACAGGAAAAUUCAAAUAAACGGAAGGAAACAA
....((.....((((.(((((..(....)..))))).....((((((....))))))....)))).((((.(((....((.((.....)).))))).)))).......))..(....).. (-21.42 = -22.43 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:22 2006