Locus 5039

Sequence ID X_DroMel_CAF1
Location 13,187,009 – 13,187,125
Length 116
Max. P 0.784433
window8200

overview

Window 0

Location 13,187,009 – 13,187,125
Length 116
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 98.28
Mean single sequence MFE -23.82
Consensus MFE -23.22
Energy contribution -23.22
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.29
Structure conservation index 0.97
SVM decision value 0.57
SVM RNA-class probability 0.784433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13187009 116 + 22224390
GAAAACAACAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUAC-CCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((.((((.(((((..((((((...))))))(((....))).)))))))))-.((((....(((....)))....)))).........)))))..))).. ( -23.90)
>DroSec_CAF1 16656 116 + 1
GAAAACAACAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUCC-CCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((.(..(((((((..((((((...))))))(((....))).)))))))..-)((((....(((....)))....)))).........)))))..))).. ( -23.80)
>DroSim_CAF1 18038 116 + 1
GAAAACAACAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUCC-CCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((.(..(((((((..((((((...))))))(((....))).)))))))..-)((((....(((....)))....)))).........)))))..))).. ( -23.80)
>DroEre_CAF1 20740 116 + 1
AAAAACAGCAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUCC-CCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((.(..(((((((..((((((...))))))(((....))).)))))))..-)((((....(((....)))....)))).........)))))..))).. ( -23.80)
>DroYak_CAF1 23147 117 + 1
AAAAACAGCAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUCCCCCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((.(..(((((((..((((((...))))))(((....))).)))))))..).((((....(((....)))....)))).........)))))..))).. ( -23.80)
>consensus
GAAAACAACAUUUAUCGGAAAGUAAAUAAAGACCACGGGAUACUCGUGUGACAAAUCAACUUUGUUCC_CCGUAAAUUGCCAUCUGGCUGAAUAUGAAAUCUCAGUUCCGGCAAAAA
..........(((..(((((....(((((((..((((((...))))))(((....))).)))))))....((((....(((....)))....)))).........)))))..))).. (-23.22 = -23.22 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:42 2006