Locus 5312

Sequence ID 3R_DroMel_CAF1
Location 13,889,200 – 13,889,295
Length 95
Max. P 0.899635
window8664

overview

Window 4

Location 13,889,200 – 13,889,295
Length 95
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 81.85
Mean single sequence MFE -30.36
Consensus MFE -21.90
Energy contribution -23.50
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.72
SVM decision value 1.01
SVM RNA-class probability 0.899635
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13889200 95 - 27905053
CAUCCACUGCCAGUCAAAAGUCACAGCUCACGGUUGACUGACUGACUGGCGACUGGAGGGACCCAA----------AAGCUGGAGUGGAA------GUACGAGUAUCUCAC
..((((((((((((((..(((((..((.....)))))))...))))))))...(((......))).----------.......)))))).------....(((...))).. ( -31.80)
>DroSec_CAF1 151577 92 - 1
CAUCCACUGCCAGUCAAAAGUCACAGCUCACGGUUGACU----GACUGGCGACUGGAGGAGCCCAA----------AAGCUGGAGUGGAA-----ACUACAAGUAUCUCAC
..((((((.(((((....(((((((((.....))))..)----))))(((..(....)..)))...----------..))))))))))).-----................ ( -29.30)
>DroSim_CAF1 160571 79 - 1
CAUCCACUGCCAGUCAAAAGUCACAGCUCACGGUUGACU----GACUGGCGACUGGAGGAGCCCAA----------AAGCUGGA------------------GUAUCUCAC
.......(((((((((...((((..((.....)))))))----))))))))....((((.(((((.----------....))).------------------)).)))).. ( -25.60)
>DroEre_CAF1 151927 106 - 1
CAUCCACUGCCAGUCAAAAGUCACCGCUCACGGUUGACU----GACUGGCGACUGGAGGG-CCCAAAACCUCCCAAAACCUGGAGUGGAAUGUUUAGUACGAGUAUCUCAC
..((((((((((((((...(((((((....))).)))))----)))))))....(((((.-.......)))))..........))))))...........(((...))).. ( -40.10)
>DroYak_CAF1 169496 90 - 1
CAUCCACUGCCAUUCAAAAGUCACCGCUCACUGUUCACU----GACUGGCGACUGCAGGG-CCCAC----------AAGCUGGAGUGGAA------GUACGAGUAUCUCAC
..(((((((((.......((((.(((.(((........)----)).))).))))....))-)(((.----------....))))))))).------....(((...))).. ( -25.00)
>consensus
CAUCCACUGCCAGUCAAAAGUCACAGCUCACGGUUGACU____GACUGGCGACUGGAGGG_CCCAA__________AAGCUGGAGUGGAA______GUACGAGUAUCUCAC
..(((((((((((((...(((((..((.....)))))))....)))))))...(((......)))..................))))))...................... (-21.90 = -23.50 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:43 2006