Locus 1328

Sequence ID X_DroMel_CAF1
Location 3,967,743 – 3,967,835
Length 92
Max. P 0.847741
window2118

overview

Window 8

Location 3,967,743 – 3,967,835
Length 92
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 86.51
Mean single sequence MFE -30.80
Consensus MFE -20.76
Energy contribution -20.96
Covariance contribution 0.20
Combinations/Pair 1.19
Mean z-score -2.52
Structure conservation index 0.67
SVM decision value 0.78
SVM RNA-class probability 0.847741
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3967743 92 + 22224390
UGUUGAGCAGCUCGUCAAGUACAUUGAAAACGAUGUCAACGGUGGC------GGAAACAGUGCCGCUGGACAGCGCA---AGAAGGAGCGCAAGAAGCAAA
((((..((.(((((((..(.((((((....)))))))..(((((((------(....)...))))))))))..(...---.)...))))))....)))).. ( -31.10)
>DroSec_CAF1 17712 92 + 1
UGUUGAGCAGCUCGUCAAGUACAUUGAAAACGAUGUCAACGUUGGC------GGAAACAGUGCCGCUGGACAGCGCA---AGAAGGAGCGCAAGAAGCAAA
((((.(((.((.((((((((((((((....))))))..)).)))))------(....).).)).))).))))((((.---.......)))).......... ( -30.50)
>DroEre_CAF1 18277 92 + 1
UGUCGAGCAGCUCGUCAAGUACAUUGAAAACGAUGUCAACGGUGGC------GGGAACAGUGCCGCUGGACAGCGCA---AGAAGGAGCGCAAGAAGCAAA
((((.(((.((.(((((.((((((((....))))))..))..))))------(....).).)).))).))))((((.---.......)))).......... ( -30.30)
>DroYak_CAF1 17782 92 + 1
UGUCGAGCAGCUUGUCAAGUAUAUUGAAAACGAUGUCAACGGUGGC------GGGAACAGCGCCGCUGGACAGCGCA---AGAAGGAGCGCAAGAAGCAAA
.........(((((((..(.((((((....)))))))..(((((((------(.......))))))))))).((((.---.......))))...))))... ( -30.70)
>DroAna_CAF1 19968 101 + 1
UGUCGAGCAGCUGGUCAAGUACAUUGAGAACGAUGGUGCCGGAGGUGGGGGUGGCAACAAUGCGGCCGCCCAGCAGAAGAAGAAGGAGCGCAAGAAGCAGA
......((..((((.((....(((((....))))).)))))).(.(((((((.(((....))).))).)))).).............))((.....))... ( -31.40)
>consensus
UGUCGAGCAGCUCGUCAAGUACAUUGAAAACGAUGUCAACGGUGGC______GGAAACAGUGCCGCUGGACAGCGCA___AGAAGGAGCGCAAGAAGCAAA
..((..((.((((.((((.....))))...((.((((..(((((((......(....)...))))))))))).))..........))))))..))...... (-20.76 = -20.96 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:38 2006