Locus 3437

Sequence ID 2R_DroMel_CAF1
Location 11,588,947 – 11,589,046
Length 99
Max. P 0.515292
window5610

overview

Window 0

Location 11,588,947 – 11,589,046
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.01
Mean single sequence MFE -30.30
Consensus MFE -19.49
Energy contribution -21.49
Covariance contribution 2.00
Combinations/Pair 0.97
Mean z-score -2.07
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.515292
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11588947 99 + 20766785
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACAGGGUUGGAUACC---CGCUUCCUGGC------------------GCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((....((((.....)))---)(((....)))------------------....))))))))))))). ( -27.00)
>DroSec_CAF1 22512 102 + 1
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACAGGGUAGCGUACCCCACGCUUCCUGGC------------------GCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((..(((((.(((((.....))))))))))..------------------....))))))))))))). ( -30.90)
>DroSim_CAF1 25781 102 + 1
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACAGGGUAGCGUACCCCACGCUUCCUGGC------------------GCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((..(((((.(((((.....))))))))))..------------------....))))))))))))). ( -30.90)
>DroEre_CAF1 23220 94 + 1
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACAGGGUU-----CC---CGCUUCCUGGA------------------GCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((....((...-----.)---)((((....))------------------))..))))))))))))). ( -25.30)
>DroYak_CAF1 23297 112 + 1
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACACGGUA-----CC---CGCUUCCUGGAGCUGGUGCUGGAGCUGGAGCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((....(((((-----((---.((((....)))).))))))).(((....))).))))))))))))). ( -37.40)
>consensus
AAAUGGCAUCAAUGGGCACAAUAAGCAUAUAACAAUGACAUGAAAGCCAAAGUGAACAGGGUAG__UACC___CGCUUCCUGGC__________________GCUGCACUUUGUGUGCCA
..............((((((....((((......))).)........(((((((..(((((................)))))((((((((......))))))))..))))))))))))). (-19.49 = -21.49 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:30 2006