Locus 3779

Sequence ID 2R_DroMel_CAF1
Location 12,498,402 – 12,498,500
Length 98
Max. P 0.639593
window6122

overview

Window 2

Location 12,498,402 – 12,498,500
Length 98
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 72.45
Mean single sequence MFE -16.28
Consensus MFE -1.22
Energy contribution -1.10
Covariance contribution -0.12
Combinations/Pair 1.75
Mean z-score -1.51
Structure conservation index 0.07
SVM decision value 0.22
SVM RNA-class probability 0.639593
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12498402 98 + 20766785
UCAACGCUGAAAAGUAUGCAAUUAAAAGGUUCAUACUCUUUAGUCCUUAAAAGGGGUUGGC-----AUUUCCUAAACAGAAAAUAACUUGCACAAAUAGAAAG
.((((((((((.((((((.((((....)))))))))).))))))(((.....)))))))((-----(((((.......))))......)))............ ( -17.70)
>DroSec_CAF1 32910 100 + 1
UCAACGCCGGAAAGUAUGCAAUUAAAAUGUUCAUACUCUUUAAUCCUUAAAAAGGGAUAGC---ACAUUUCCUAAACAGAAAAUACCUUGCACAAUUAGAAAA
........((((((((((.(((......))))))))......((((((....))))))...---...)))))............................... ( -14.30)
>DroSim_CAF1 28116 87 + 1
UCAACGCCGGAAAGUAUGCAAUUAAAAUGUUCAUACUCUUUAAUCCUUAAAAAGGGAUA----------------ACAAAAAAUACCUUGCACAGAUAAAAAA
.....((.((..((((((.(((......))))))))).....((((((....)))))).----------------..........))..))............ ( -13.40)
>DroEre_CAF1 27918 103 + 1
CCAACGCCGGAAAGUAUCCAAUUAAAAUGCUCUUCCUCUUUCGUUGCUAAGAAGGACGAUUUCCUAGUUUUCUAGACGGAAAAUACCUUCUUCAAAUAGAAAG
........(((((((((.........))))).)))).(((((.(((..(((((((....(((((..(((.....))))))))...))))))))))...))))) ( -22.10)
>DroYak_CAF1 28725 89 + 1
UCAACGCCGGAAAGUAUGCAAUUAAAUUGUUCU-----UUUCGUCCUUAAGAAGGAAUAAAUCC--------UAAACAGAAAAUAUAUUUUUCA-AUAAAAAG
.......(((((((...(((((...))))).))-----)))))((((.....))))........--------......(((((.....))))).-........ ( -13.90)
>consensus
UCAACGCCGGAAAGUAUGCAAUUAAAAUGUUCAUACUCUUUAGUCCUUAAAAAGGGAUAGC______UUU_CUAAACAGAAAAUACCUUGCACAAAUAGAAAG
...........................................((((.....))))............................................... ( -1.22 =  -1.10 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:57 2006