Locus 6348

Sequence ID 2R_DroMel_CAF1
Location 19,911,847 – 19,911,950
Length 103
Max. P 0.798145
window10145

overview

Window 5

Location 19,911,847 – 19,911,950
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 91.26
Mean single sequence MFE -38.84
Consensus MFE -31.35
Energy contribution -33.19
Covariance contribution 1.84
Combinations/Pair 1.13
Mean z-score -2.56
Structure conservation index 0.81
SVM decision value 0.61
SVM RNA-class probability 0.798145
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19911847 103 + 20766785
AAGGCGGCAAGGGUUCGCGCAAAUAGGAGCGGAAGAAAAAGCGCAAACCCCGUCGCAAACGAAAGAAGCAGCGGGCGCAGGACUAGCUGCUGCUUCUUCUGUU
...(((((..(((((.((((.........(....).....)))).))))).))))).((((.((((((((((((.(.........))))))))))))).)))) ( -43.74)
>DroSec_CAF1 1057 103 + 1
AAGGCGGCAAGGGUUCGCGCAAAUAGGAGCGGAAGAAAAAGCGCAAGCCCCGUCGCAAGCGAAAGAAGCAGGGGCCGCAGGACUAGCUGCUGCUUCUUCUGUU
...(((((..(((((.((((.........(....).....)))).))))).))))).((((.(((((((((.(((..........))).))))))))).)))) ( -42.44)
>DroSim_CAF1 1060 103 + 1
AAGGCGGCAAGGGUUCGCGCAAAUAGGAGCGAAAGAAAAAGCGCAAGCCCCGUCGCAAGCGAAAGAAGCAGGGGCCGCAGGACUAGCUGCUGCUUCGUCUGUU
...(((((..(((((.((((.........(....).....)))).))))).))))).((((...(((((((.(((..........))).)))))))...)))) ( -39.54)
>DroEre_CAF1 1062 103 + 1
AAGGCGGCAAGGGUUCGCGGAAAUAGGAGCGGAAGAAAAAGCGCAAGCCCCGUCGCAAGCGAAAGAAGCAGGGGCCGCAGGACUAGCUACUGCUUCUUCUGUU
...(((((..((((((((..........))))).......((....)))))))))).((((.(((((((((..((..........))..))))))))).)))) ( -38.50)
>DroYak_CAF1 1061 103 + 1
AAGGCGGCAAGGGUUCGCGCAAAUAGGAGCGGAAGAAAAAGCGCAAGCCCCGUCGCAAGCGAAAGAAGCAGGGGCCGCAGGACUAGCUGCUGCUUCUUCUGUU
...(((((..(((((.((((.........(....).....)))).))))).))))).((((.(((((((((.(((..........))).))))))))).)))) ( -42.44)
>DroAna_CAF1 1053 101 + 1
AGGCCGGUAAGGGGUCGCGUAAAUAGGAACGAAAGAAGAAGCGCAAGCCCCGUCGCAAGCGAAGGAAGCAGGCGCCGCAGGAUUAAAUGCCUCAUCG--AGUU
.(((((((.((((((((((..........(....).....((((..((.((.(((....))).))..))..)))))))..)))).....))).))))--.))) ( -26.40)
>consensus
AAGGCGGCAAGGGUUCGCGCAAAUAGGAGCGGAAGAAAAAGCGCAAGCCCCGUCGCAAGCGAAAGAAGCAGGGGCCGCAGGACUAGCUGCUGCUUCUUCUGUU
...(((((..(((((.((((.........(....).....)))).))))).))))).((((.(((((((((.(((..........))).))))))))).)))) (-31.35 = -33.19 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:54 2006