Locus 399

Sequence ID X_DroMel_CAF1
Location 1,174,741 – 1,174,861
Length 120
Max. P 0.670403
window610

overview

Window 0

Location 1,174,741 – 1,174,861
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.63
Mean single sequence MFE -34.80
Consensus MFE -27.40
Energy contribution -27.96
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.63
Structure conservation index 0.79
SVM decision value 0.29
SVM RNA-class probability 0.670403
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1174741 120 + 22224390
CUCCACUUUCUCCCAGUGCAAAGCCCUUCGAUUUCGUUUGGUUACAGAAACUGGGAGUCUCGAUCCCUCCAUUUGGGAUUUUUGUGCCAUUGCCUGGCGCUCGGCCUCCUUUCAACGGCA
.........((((((((....((((...((....))...))))......))))))))....((((((.......))))))...((((((.....))))))...(((..........))). ( -37.70)
>DroSec_CAF1 10760 118 + 1
CUCCGCUUUCUCCCAGUGCAAAGCCCUUU--UUUCGUUUGGUUACAGAAACUGGGAGUCUCGAUCCCUCCAUUUGGGAUUUUCGUGCAAUUGCCUGGCGCUCUGCCUCCUUUCAGCGGCA
..(((((..((((((((....((((....--........))))......))))))))....((((((.......))))))...((((.........)))).............))))).. ( -32.70)
>DroSim_CAF1 25807 120 + 1
CUCCGCUUUCUCCCAGUGCAAAGACCUUCAAUUUCGUUUGGUUACAGAAACUGGGAGUCUCGAUCCCUCCAUUUGGGAUUUUCGUGCAAUUGCCUGGCGCUCUGCCUCCUUUCAGCGGCA
..(((((..((((((((.....((((.............))))......))))))))....((((((.......))))))...((((.........)))).............))))).. ( -34.62)
>DroEre_CAF1 9808 117 + 1
CUCCGCUUUCUCCCAGUGCAAAGCCCUUCAAUUUCGAUUGGUAACAGGAACUGGGAGUCUCGAUCCCUCCCUUUGGGAUCUUCGUGCAAUUGCCUGGCGCUUGGC---CUUUCAGCGGCA
..(((((..((((((((.(...(((..((......))..))).....).))))))))....((((((.......))))))...(.((....))).(((.....))---)....))))).. ( -38.30)
>DroYak_CAF1 12670 102 + 1
CUCCGCUUUCUCCCAGUGCAAAGCCCUUCAAUUUCGAUUGGUAACAGGAACUGGGAGCCUCGA---------------UCUUCGUGCCAUUGCCUGGCGCUUGGC---CUUUCAACGGCA
...((....((((((((.(...(((..((......))..))).....).))))))))...)).---------------.....((((((.....))))))...((---(.......))). ( -30.70)
>consensus
CUCCGCUUUCUCCCAGUGCAAAGCCCUUCAAUUUCGUUUGGUUACAGAAACUGGGAGUCUCGAUCCCUCCAUUUGGGAUUUUCGUGCAAUUGCCUGGCGCUCGGCCUCCUUUCAGCGGCA
..(((((..((((((((.......((.............))........))))))))....((((((.......))))))...((((.........)))).............))))).. (-27.40 = -27.96 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:37 2006