Locus 4846

Sequence ID 2R_DroMel_CAF1
Location 15,902,371 – 15,902,485
Length 114
Max. P 0.992894
window7785

overview

Window 5

Location 15,902,371 – 15,902,485
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 76.55
Mean single sequence MFE -28.26
Consensus MFE -20.38
Energy contribution -20.50
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -2.33
Structure conservation index 0.72
SVM decision value 2.36
SVM RNA-class probability 0.992894
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15902371 114 - 20766785
UCCGACAUUUCCGGUGAUUUGAAACCACUUGAAAAGUCAUUUUUCAGUUU-GAUUAAAACGACAGGCAUAGCCUGUGGCCCUUUU---C-UUAAAGUGAUUUUAGAUUACUGGAUUUCG
..(((....(((((((((((((((.(((((((((((..........((((-.....)))).((((((...))))))....)))))---)-...))))).)))))))))))))))..))) ( -37.90)
>DroSec_CAF1 30260 91 - 1
UCCGACAUUUCUGGUGAUUUGAAACCACUUGAAAAGUC-------------------------AGGCAUGGCCUAUGGCGCUUUU---UUUAAAAGUGAUUUUAGAUUACUGGAUUUCG
..(((....((..(((((((((((.((((((((((((.-------------------------((((...)))).....))))))---)....))))).)))))))))))..))..))) ( -27.50)
>DroSim_CAF1 27669 118 - 1
UCCGACAUUUCUGGUGAUUUGAAACCACUUGAAAAGUCAUUUUUCAGUUU-GAUUAAGACGACAGACAUAGCCUAUGGCGCUUUUUUUUUUUAAAGUGAUUUUAGAUUACUGGAUUUCG
..(((....((..(((((((((((.((((((((((((.........((((-(..........)))))...(((...)))))))))).......))))).)))))))))))..))..))) ( -29.71)
>DroEre_CAF1 28221 106 - 1
GCAGAAUUUUCUGGUGAUGUGAAACCAUUUGAAAAGUCAUCUUU-AGUGU-GAUAAAAAC-----GAAUAGCCUACGGCGCCUC------UUAAAGUGAUUUUAGAUUACUGGAUUUCG
...(((...((..(((((.(((((.(((((.....(((((....-...))-)))......-----((...(((...)))...))------...))))).))))).)))))..)).))). ( -24.20)
>DroYak_CAF1 31062 107 - 1
CCAGAAAUUUCUGGUGAUUUGAAAGCACUUGAAAAGUCGUUUUU-AGUUUGGAUAAAAAC-----ACAUAGCCCACGGCCCCCC------UUAAACUGAUUUUAGAUUACUGGAUCUCG
...((....((..(((((((((((.((........((.((((((-(.......)))))))-----))...(((...))).....------......)).)))))))))))..))..)). ( -22.00)
>consensus
UCCGACAUUUCUGGUGAUUUGAAACCACUUGAAAAGUCAUUUUU_AGUUU_GAUAAAAAC___AGGCAUAGCCUAUGGCGCUUUU_____UUAAAGUGAUUUUAGAUUACUGGAUUUCG
...((....(((((((((((((((.(((((((....))................................(((...)))..............))))).)))))))))))))))..)). (-20.38 = -20.50 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:41 2006