Locus 10343

Sequence ID 3R_DroMel_CAF1
Location 27,839,076 – 27,839,167
Length 91
Max. P 0.937971
window16460

overview

Window 0

Location 27,839,076 – 27,839,167
Length 91
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 74.66
Mean single sequence MFE -13.60
Consensus MFE -8.02
Energy contribution -8.82
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.59
SVM decision value 1.29
SVM RNA-class probability 0.937971
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27839076 91 + 27905053
CUACAUACAUAUGUACAUCAAAACAAAGA-AGUCACGAGUUGCAAAAGCUCGUGGAAACGGAAACUGGACACACUACAAGAAAGUGCCAAAA-
.(((((....)))))..............-..(((((((((.....)))))))))....(....)(((.(((...........))))))...- ( -19.70)
>DroSec_CAF1 148391 79 + 1
CUAC----AUAUGUACAUCAAAACAAAGA-AGUCACGAGUUGCAAAAGCUCGUGGAAACGGAAA-------CACUACAAGAAAUUUGAAA-A-
....----.........(((((.......-..(((((((((.....)))))))))....(....-------)...........)))))..-.- ( -16.80)
>DroSim_CAF1 150112 87 + 1
CUAC----AUAUGUACAUCAAAACAAAGA-AGUCACGAGUUGCAAAAGCUCGUGGAAACGGAAACUGGACACACUACAAGAAAUUUGAAAAA-
....----.........(((((.......-..(((((((((.....)))))))))....(....)..................)))))....- ( -16.30)
>DroEre_CAF1 177951 75 + 1
CUU------------UAUCAUAACAAAGAAAGUCACGAGUUGCAAAAGCUCUUAGAAAC------UGGGCACAACACAAGAAAAUUAAAGAAA
(((------------((((........))..(((..(((((.....))))).(((...)------)))))...............)))))... (  -6.70)
>DroYak_CAF1 149486 75 + 1
CUU------------CAUCAUAACAAAGAAAGUCACGAGUUGCAAAAGCUCUUAGAAAC------UGAAAACAACACAAGAAAUUGAAGGAAA
(((------------((...................(((((.....)))))((((...)------)))................))))).... (  -8.50)
>consensus
CUAC____AUAUGUACAUCAAAACAAAGA_AGUCACGAGUUGCAAAAGCUCGUGGAAACGGAAA_UGGACACACUACAAGAAAUUUAAAAAA_
................................(((((((((.....)))))))))...................................... ( -8.02 =  -8.82 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:28 2006