Locus 5517

Sequence ID 2R_DroMel_CAF1
Location 17,660,482 – 17,660,602
Length 120
Max. P 0.600013
window8835

overview

Window 5

Location 17,660,482 – 17,660,602
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -28.74
Consensus MFE -25.98
Energy contribution -26.38
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.23
Structure conservation index 0.90
SVM decision value 0.13
SVM RNA-class probability 0.600013
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17660482 120 + 20766785
UUUGAGAGCAUUGAAAUUUAUAGAUUCCCCAUUCAAAAGCUUUCAAUUUUCUGGCCAGCAACGAUUCUUGAUUGAGAGCUAUGAAAGGAAUUCUCUAUUCAGAGAUUCUAUACUUAGGUU
..................((((((....((.((((..(((((((((((.((..(....)...)).....))))))))))).)))).))...(((((....))))).))))))........ ( -24.50)
>DroSec_CAF1 13937 120 + 1
UUUGAGAGCAGUGAAAUUUAUAGAUUCCCCAGUCAAAAGCUUUCAAUUUUCUGGCCAGCAAAGAUUCUUGAUUGAGAGCUAUGAAAGGAAUUCUCUAUUCAGGGGUUCUAUACUUGGGUU
..................((((((..((((.......(((((((((((.(((.........))).....))))))))))).((((.(((....))).)))))))).))))))........ ( -30.60)
>DroSim_CAF1 19951 120 + 1
UUUGAGAGCAUUGAAAUUUAUAGAUUCCCCAGUCAAAAGCUUUCAAUUUUCUGGCCAGCAAAGAUUCUUGAUUGAGAGCUAUGAAAGGAAUUCUCUAUUCAGGGGUUCUAUACUUGGGUU
..................((((((..((((.......(((((((((((.(((.........))).....))))))))))).((((.(((....))).)))))))).))))))........ ( -30.60)
>DroEre_CAF1 14275 120 + 1
UUUGAGAGCAUUGAAAUUUAUAGAUUCCCCAGUCAAAAGCUUUCAAUUUUCUGGCCAGCAACGAUUCUUGAUUGAGAGCUAUGAAAGGAAUUCUCUAUUCAGGGGUUCUAUACUUGGGUU
..................((((((..((((.......(((((((((((.((..(....)...)).....))))))))))).((((.(((....))).)))))))).))))))........ ( -29.10)
>DroYak_CAF1 25765 120 + 1
UUUGAGAGCAUUGAAAUUUAUAGAUUCCCCAGUCAAAAGCUUUCAAUUUUCUGGCCAGCAACGAUUCUUGAUUGAGAGCUAUGAAAGGAAUGGUCUAUUCAGGGGUUCUAUACUAGGGUU
..................((((((..((((.......(((((((((((.((..(....)...)).....))))))))))).((((.(((....))).)))))))).))))))........ ( -28.90)
>consensus
UUUGAGAGCAUUGAAAUUUAUAGAUUCCCCAGUCAAAAGCUUUCAAUUUUCUGGCCAGCAACGAUUCUUGAUUGAGAGCUAUGAAAGGAAUUCUCUAUUCAGGGGUUCUAUACUUGGGUU
..................((((((..((((.......(((((((((((.((..(....)...)).....))))))))))).((((.(((....))).)))))))).))))))........ (-25.98 = -26.38 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:25 2006