Locus 1180

Sequence ID 2R_DroMel_CAF1
Location 4,692,633 – 4,692,723
Length 90
Max. P 0.517199
window2065

overview

Window 5

Location 4,692,633 – 4,692,723
Length 90
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.22
Mean single sequence MFE -30.18
Consensus MFE -20.11
Energy contribution -20.78
Covariance contribution 0.67
Combinations/Pair 1.16
Mean z-score -1.51
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.517199
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4692633 90 - 20766785
GGCUCAG------------------GAAACCCCAGGCGAGCUCGAAGACGUGGCCAGCUCCAUCUCCACGGACAGUGGAGCCCUCGGCAAGACCAAGAAAAAGAGCCU
(((((.(------------------(.....)).(((..((.(((....((((......))))((((((.....))))))...)))))..).))........))))). ( -29.80)
>DroSec_CAF1 2380 90 - 1
GGCUCAG------------------GAAACCCCAGGCGAGCUUGAAGACGUGGCCAGCUCCAUCUCCACGGACAGUGGAGCCCUCGCCAAGACCAAGAAAAAGAGCCU
(((((.(------------------(.....)).((((((.........((((......))))((((((.....))))))..))))))..............))))). ( -33.40)
>DroSim_CAF1 2389 90 - 1
GGCUCAG------------------GAAACCCCAGGCGAGCUUGAAGACGUGGCCAGCUCCAUCUCCACGGACAGUGGAGCCCUCGCCAAGACCAAGAAAAAGAGCCU
(((((.(------------------(.....)).((((((.........((((......))))((((((.....))))))..))))))..............))))). ( -33.40)
>DroEre_CAF1 2424 90 - 1
GGCUCAG------------------GAAACCCCAGGCGAGCUUGAAGACGUGGCCAGCUCCAUCUCCACGGAUAGUGGAACCCUCUCCAAGACAAAAAAAAAGAGCCU
(((((.(------------------(.....)).((.(((.........((((......)))).(((((.....)))))...))).))..............))))). ( -25.40)
>DroYak_CAF1 2418 90 - 1
GGCCCAG------------------GAAACCCCAGGUGAGCUUGAAGACGUGGCCAGCUCCAUCUCUACGGAUAGUGGAGCCCUCUCCAAGACUAAGAAAAAGAGCCU
(((((.(------------------(.....)).))..((((((.(((...((...(((((((.((....))..)))))))))))).)))).))..........))). ( -25.60)
>DroAna_CAF1 3151 108 - 1
GGAUCAGACUGUGGAGGAGGAGAUAGAUACGCCCGGUGACCUACUGGAGGUGGCCAGCUCCAUAAGCACGGAUAGCGGGGCGGUGGGCAAGACCAAGAAGAAGAGUCU
.....(((((.(.................((((((((.((((.....)))).))).(((((........)))..)).))))).(((......)))......).))))) ( -33.50)
>consensus
GGCUCAG__________________GAAACCCCAGGCGAGCUUGAAGACGUGGCCAGCUCCAUCUCCACGGACAGUGGAGCCCUCGCCAAGACCAAGAAAAAGAGCCU
(((((.............................(((..((........)).))).(((((((.((....))..))))))).....................))))). (-20.11 = -20.78 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:25 2006