Locus 6682

Sequence ID 2L_DroMel_CAF1
Location 18,719,126 – 18,719,246
Length 120
Max. P 0.869850
window10660

overview

Window 0

Location 18,719,126 – 18,719,246
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.05
Mean single sequence MFE -32.26
Consensus MFE -24.16
Energy contribution -25.84
Covariance contribution 1.68
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.75
SVM decision value 0.87
SVM RNA-class probability 0.869850
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18719126 120 + 22407834
GAGCGAAGCAAAGCGGAGUGGAGCAGUUCACAAAUCAGGCAAAAUAAAAUUAAAUAGGAUUGGGAGCGGGGGGGAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
((((.....((((((..(((((....))))).....((((((.....((((......)))).(((((((...........)))))))......))))))...)))))).....))))... ( -35.10)
>DroSec_CAF1 11859 119 + 1
GCGCAAAGCGAAGCGGAGUGGAGCAGUUCACAAAUCAGGCAAAAUAAAAUUAAAUAGGAUUGGGAGCGGG-GGGAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
..((..(((((((((..(((((....))))).....((((((.....((((......)))).(((((((.-.........)))))))......))))))...)))))).....)))..)) ( -31.20)
>DroSim_CAF1 10293 119 + 1
GCGCGAAGCGAAGCGGAGUGGAGCAGUUCACAAAUCAGGCAAAAUAAAAUUAAAUAGGAUUGGGAGCGGG-GGGAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
..((..(((((((((..(((((....))))).....((((((.....((((......)))).(((((((.-.........)))))))......))))))...)))))).....)))..)) ( -32.20)
>DroEre_CAF1 12017 108 + 1
GAGCG-----AAGCGAAGUGAAGCAGUUCACAAAUCAGGCUAAAUAAAAUUAAAUAGG------AGCGGG-GGAAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
(((((-----(((((..(((((....))))).....((((.......((((((((.((------(((((.-.........)))))))))))))))))))...)))))).....))))... ( -34.21)
>DroYak_CAF1 12032 109 + 1
GACCG-----AAGCGGAGGGAAGCAGUUCACAAAUCAGGCUUAAUAAAAUUAAAUAGG------AGCGGGGGGAAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
....(-----(.((....((((((.(....).....((((.......((((((((.((------(((((...........)))))))))))))))))))....))))))....))))... ( -28.61)
>consensus
GAGCGAAGC_AAGCGGAGUGGAGCAGUUCACAAAUCAGGCAAAAUAAAAUUAAAUAGGAUUGGGAGCGGG_GGGAAUAAACUGCUCCAUUUGAUUGCCUAAACGUUUUCAACAGCUCAGC
((((.....((((((..(((((....))))).....((((.......((((((((.......(((((((...........)))))))))))))))))))...)))))).....))))... (-24.16 = -25.84 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:16 2006