Locus 4196

Sequence ID 3R_DroMel_CAF1
Location 11,348,514 – 11,348,618
Length 104
Max. P 0.505045
window6761

overview

Window 1

Location 11,348,514 – 11,348,618
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.48
Mean single sequence MFE -39.88
Consensus MFE -26.39
Energy contribution -26.59
Covariance contribution 0.20
Combinations/Pair 1.20
Mean z-score -1.56
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.505045
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11348514 104 - 27905053
UUCCGAUUCCUAGACCGAGACAGUAUCCUGG----------------GAUGCUGGGAUGGAAUGUCUGCUGGCAAACGAGGGCAUGGUUACACGUACCUGUGCGUCCUUGCCGGCUGUCA
............(((..(((((.(((((..(----------------....)..)))))...)))))(((((((((((.(((.(((......))).)))...)))..)))))))).))). ( -38.40)
>DroSec_CAF1 87391 104 - 1
UUCCGAUUCCUAGACCGAGACAGUAUCCUGG----------------GAUGCUGGGACGGAAUGUCUGCUGGCAAACGAGGGCAUGGUUACACGUACCUGUGCGUCCUUGCCGGCUGUCA
(((((..((((((.((.((........)).)----------------)...)))))))))))((.(.(((((((((((.(((.(((......))).)))...)))..)))))))).).)) ( -39.90)
>DroSim_CAF1 85965 104 - 1
UUCCGAUUCCUAGACCGAGACAGUAUCCUGG----------------GAAGCUGGGACGGAAUGUCUGCUGGCGAACGAGGGCAUGGUUACACGUACCUGUGCGUCCUUGCCGGCUGUCA
(((((..((((((.((.((........)).)----------------)...)))))))))))((.(.(((((((((((.(((.(((......))).)))...)))..)))))))).).)) ( -39.60)
>DroEre_CAF1 83664 113 - 1
UUCCGAUUCCG------AAUUUGUAUCCCGGGAUUUUUAGGUGCUGGGCUGCUGGGAUGGAAUGUCAGCCGGCAAUUG-GGGCAUGGUUACACGUACCUGUGCGUCCUUGCCGGCUGCAA
((((.((((((------.....(((.(((((.(((....))).))))).)))))))))))))((.((((((((((..(-(((((((((.......))).)))).))))))))))))))). ( -49.50)
>DroYak_CAF1 85937 111 - 1
UUCCAAUUCCGAAACCGAAUCUGUAUCCUGA--------AAUGCUGCGAUACUGGGAUAGAAUGUCUGCUGGCAAUCG-GGGCAUGGUUACACGUACCUGUGCCUCCUUGCCUGCUGCAA
(((((....((....)).....((((((...--------......).)))))))))).....(((..((.(((((..(-(((((((((.......))).))))))).))))).)).))). ( -32.00)
>consensus
UUCCGAUUCCUAGACCGAGACAGUAUCCUGG________________GAUGCUGGGAUGGAAUGUCUGCUGGCAAACGAGGGCAUGGUUACACGUACCUGUGCGUCCUUGCCGGCUGUCA
(((((..(((..........(((((((....................))))))))))))))).....((((((((....(.(((.(((.......)))))).)....))))))))..... (-26.39 = -26.59 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:15 2006