Locus 4877

Sequence ID 3R_DroMel_CAF1
Location 12,833,182 – 12,833,283
Length 101
Max. P 0.590288
window7987

overview

Window 7

Location 12,833,182 – 12,833,283
Length 101
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 92.87
Mean single sequence MFE -25.42
Consensus MFE -18.86
Energy contribution -19.10
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.74
SVM decision value 0.11
SVM RNA-class probability 0.590288
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12833182 101 + 27905053
ACUGUAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAGUAGUAG-------UCAUUAAAAGGCAAGAAUGUCACAAUUUGCUCCAAUAAAAGUUAUUGGCCAAUAAA
..........((...(((((((..(((((((((.....)))))))-------.))..)))))))...................((((((.....))))))))...... ( -20.00)
>DroSec_CAF1 2679 108 + 1
AAUGUAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAAUAGUGGCCAAACGUCAUUAAACGGCAAGAAUGUCACAAUUGGCUCCAAUAAAAGUUAUUGGCCAAUAAA
....((((((.(((((((.((((.(((....))).)))).))))))).....))))))...((((....))))...((((((..(((((.....)))))))))))... ( -28.10)
>DroSim_CAF1 2750 108 + 1
ACUGUAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAAUAGUGGCCAAACGUUAUUAAACGGCAAGAAUGUCACAAUUGGCUCCAAUAAAAGUUAUUGGCCAAUAAA
...((((((..(((((((.((((.(((....))).)))).)))))))...)))))).....((((....))))...((((((..(((((.....)))))))))))... ( -28.40)
>DroEre_CAF1 2743 108 + 1
ACUGCAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAAUAGUGGCCAAACCUCAUUAAACGGCAAGAAUGUCACAAUUAGCUCCAAUAAAAGUUAUUGCCCAAUGAA
.....(((((((((((((.((((.(((....))).)))).))))))....)))))))....((((((.....).....(((((........))))))))))....... ( -24.10)
>DroYak_CAF1 2709 108 + 1
ACUGCAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAAUAGUGGCCAAACCUCAUUAAAUGGCAAGAAUGUCACAAUUAGCUCCAAUAAAAGUUAUUGGCCAAUAAA
...(((((((((((((((.((((.(((....))).)))).))))))....)))))))...(((((....)))))......)).((((((.....))))))........ ( -26.50)
>consensus
ACUGUAAUGAGGGUCGCUUUUUUCUGUUAUUACGUGAAAUAGUGGCCAAACCUCAUUAAACGGCAAGAAUGUCACAAUUAGCUCCAAUAAAAGUUAUUGGCCAAUAAA
...(((((((.(((((((.((((.(((....))).)))).))))))).....)))))....((((....)))).......)).((((((.....))))))........ (-18.86 = -19.10 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:02 2006