Locus 8504

Sequence ID 3R_DroMel_CAF1
Location 22,701,968 – 22,702,085
Length 117
Max. P 0.995119
window13677

overview

Window 7

Location 22,701,968 – 22,702,085
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 79.20
Mean single sequence MFE -43.02
Consensus MFE -29.11
Energy contribution -30.80
Covariance contribution 1.69
Combinations/Pair 1.12
Mean z-score -2.67
Structure conservation index 0.68
SVM decision value 2.54
SVM RNA-class probability 0.995119
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22701968 117 + 27905053
ACACAAUCCUCGGAGGAGCAAGAAUCAACCACUAGCGCAGCGCCGGCGGCGGCGGCUCAAAGAGCAGGAAGCCAGUUGGUUGAGUCCAAUUCUUCCGACGAUACACUUUUCUCCGAU
.....(((.(((((((((...((.(((((((((.((....(((((....)))))((((...)))).....)).)).))))))).))...))))))))).)))............... ( -42.90)
>DroSec_CAF1 8817 117 + 1
ACGGAAUCCUCGGAGGAGCAAGGAUCAACCACCAGCGCAGCGCCAGCAGCGGCUGCUCAAAGAGCAAGAAGCCAGUUGGUGGAGUCCAAUUCUUCCGACGAUACACUUUUCUCCGAU
.(((((((.(((((((((...((((...((((((((((.((....)).))((((((((...))))....)))).)))))))).))))..))))))))).))).........)))).. ( -49.80)
>DroSim_CAF1 8786 117 + 1
ACGGAAUCCUCGGAGGAGCAAGGAUCAACCACCAGCGCAGCGCCGGCGGCGGCUGCUCAAGGAGCAAGAAGCCAGUUGGUGGAGUCUAAUUCUUCCGACGAUACACUUUUCUCCGAU
.(((((((.(((((((((...((((...((((((((...((((((....))))(((((...)))))....))..)))))))).))))..))))))))).))).........)))).. ( -48.00)
>DroYak_CAF1 11004 91 + 1
--------CUCGGAGGACCAUGCACCAACCACUAGCGCUGCGGCGGCG---GCAGCUCAAAGAG---------------UGGCAUCCAGUUCAUCCGAUGGUACACUUUUCUCCGAU
--------.((((((((...((.((((.(((((((((((((....)))---)).))).....))---------------)))........((....)))))).))...)))))))). ( -31.40)
>consensus
ACGGAAUCCUCGGAGGAGCAAGGAUCAACCACCAGCGCAGCGCCGGCGGCGGCUGCUCAAAGAGCAAGAAGCCAGUUGGUGGAGUCCAAUUCUUCCGACGAUACACUUUUCUCCGAU
.........(((((((((.....(((..(((((((((((((((.....)).))))).......((.....))..)))))))).(((..........)))))).....))))))))). (-29.11 = -30.80 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:53 2006