Locus 3353

Sequence ID 2R_DroMel_CAF1
Location 11,378,460 – 11,378,567
Length 107
Max. P 0.723676
window5479

overview

Window 9

Location 11,378,460 – 11,378,567
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.34
Mean single sequence MFE -39.84
Consensus MFE -31.84
Energy contribution -31.72
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.80
SVM decision value 0.41
SVM RNA-class probability 0.723676
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11378460 107 + 20766785
UAUCUGCCGAUG----------UCGGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGAUGCG---GCGGACAUGGCGGGGUAAUUUGACUUUGCCGCGACCAGAACAACA
..((((((...(----------(((....))))((..((((..(......)..))))..(((....))))))---)))))..(((((.(((((.......))))).)).)))........ ( -37.50)
>DroSec_CAF1 5641 117 + 1
UAUCUGCCGAUGCGUAUCUCUAUCUGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGACGCG---GCGGACGUGGCGGGGUAAUUUGACUUUGCCGCGACCAGAACAACA
...........((((.((.(.....).))..))))(((((((....((.((((..(((.....)))..))))---))((.(((((((((((......))))))))))).)).))))))). ( -41.80)
>DroSim_CAF1 7077 107 + 1
UAUCUGCCGAUG----------UCGGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGACGCG---GCGGACGUGGCGGGGUAAUUUGACUUUGCCGCGACCAGAACAACA
....(((((...----------.))))).......(((((((....((.((((..(((.....)))..))))---))((.(((((((((((......))))))))))).)).))))))). ( -43.80)
>DroEre_CAF1 5771 105 + 1
UAUCUGCCGAUG----------UCGGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGACGCG---GCGGC--GGGCGGGGUAGUUUGACUUUGCCGCGACCAGAACAGCA
....(((((...----------.))))).......(((((((....((.((((..(((.....)))..))))---))(((--(((((((((......)))))))).)).)).))))))). ( -39.80)
>DroYak_CAF1 5883 108 + 1
UAUCUGCCGAUG----------UCGGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGACGCGUAGACGGA--AGGCGGGGUAAUUUGACUUUGCCGCGACCAGAACAACA
....(((((...----------.))))).......(((((((....(((((((..(((.....)))..))))).......--.((((((((......)))))))))).....))))))). ( -36.30)
>consensus
UAUCUGCCGAUG__________UCGGCGACGACGCGUUGUUUGCUAGCACGUGAACAUUAUCAAUGGACGCG___GCGGAC_UGGCGGGGUAAUUUGACUUUGCCGCGACCAGAACAACA
....((((((............)))))).......(((((((....((.((((..(((.....)))..))))...........((((((((......)))))))))).....))))))). (-31.84 = -31.72 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:24 2006