Locus 4488

Sequence ID 3L_DroMel_CAF1
Location 12,976,322 – 12,976,441
Length 119
Max. P 0.581085
window7004

overview

Window 4

Location 12,976,322 – 12,976,441
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.95
Mean single sequence MFE -29.30
Consensus MFE -20.39
Energy contribution -20.31
Covariance contribution -0.08
Combinations/Pair 1.07
Mean z-score -1.87
Structure conservation index 0.70
SVM decision value 0.10
SVM RNA-class probability 0.581085
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12976322 119 + 23771897
AAUAAGAAACAGACGGAAAAUGAAAGUGGGGG-AUGGCAGAGUGGAGGCGUCUCAAGCUACGUAAUUUCGUCCAAGUGGGCGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUCCGCAA
...........(.(((((......(((..(((-(((.(........).))))))..)))..((((((((((((....))))..(((....)))))))))))...........)))))).. ( -32.60)
>DroSec_CAF1 93654 103 + 1
AAUAAGAAACAGGCGGAAAAUGAAAGUGGG-----------------GCGUCUCAAGCUACGUAAUUUCGUCCAAGUGGGCGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUCCGAAA
.............(((((.((....)).((-----------------((((((((....((((..((((((((....))))))))...)))))))))).....)))).....)))))... ( -29.80)
>DroSim_CAF1 103357 103 + 1
AAUAAGAAACAGACGGAAAAUGAAAGUGGG-----------------GCGUCUCAAGCUACGUAAUUUCGUCCAAGUGGGCGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUCCGCAA
...........(.(((((.((....)).((-----------------((((((((....((((..((((((((....))))))))...)))))))))).....)))).....)))))).. ( -30.00)
>DroEre_CAF1 99435 119 + 1
AAUAAGAAACAGACGGAAAAUGAAAAUGAGGG-AUGGUAGAGUGGGGGCGUCUCAAGCUACGUAAUUUCGUCCAAGUGGGUGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUUCGCAA
...........(.(((((.((....))..(((-...((((..((((.....))))..))))((((((((.(((....)))...(((....)))))))))))...))).....)))))).. ( -26.80)
>DroYak_CAF1 97655 120 + 1
AAUAAGAAACAGACGGAAAAUGAAAAUGGGGGGUUGGCUGAGUGGAGGCGUCUCAAGCUUCGUAAUUUCGUCCAAGUGGGUGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUUCGCAA
..........................((.(..(((((((.....(((((.......)))))((((((((.(((....)))...(((....))))))))))).))))....)))..).)). ( -27.30)
>consensus
AAUAAGAAACAGACGGAAAAUGAAAGUGGGGG__UGG__GAGUGG_GGCGUCUCAAGCUACGUAAUUUCGUCCAAGUGGGCGAAACAAAUGUUGAGAUUGCAGGCCCGAAAAUUCCGCAA
.............(((((........((((.................((((((((....((((..((((((((....))))))))...))))))))).)))...))))....)))))... (-20.39 = -20.31 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:39 2006