Locus 9047

Sequence ID 3R_DroMel_CAF1
Location 24,197,161 – 24,197,254
Length 93
Max. P 0.881300
window14490

overview

Window 0

Location 24,197,161 – 24,197,254
Length 93
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 87.62
Mean single sequence MFE -29.52
Consensus MFE -21.50
Energy contribution -21.70
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.73
SVM decision value 0.92
SVM RNA-class probability 0.881300
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24197161 93 + 27905053
AGAAAU------CGAGACCGGAGACCCGACACUCGAGACCCUCGCGCUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
.....(------((((..(((....)))...)))))(((((((.....))...........((((((..(((..(....)..)))...))))))))))) ( -29.50)
>DroSec_CAF1 19997 93 + 1
AGAAAC------GGAGACCGGAGACCCGACACUCGAGACCCUCGCGCUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
.....(------((...)))..(((((..(((.((((...)))).).))............((((((..(((..(....)..)))...))))))))))) ( -27.60)
>DroSim_CAF1 23756 93 + 1
AGAAAC------CGAGACCCGAGACCCGACACUCGAGACCCUCGCGCUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
......------...(((((.((((((..(((.((((...)))).).)).............(((((((........)))).)))...))))))))))) ( -31.20)
>DroEre_CAF1 24587 92 + 1
AGACCCAUUUUUCGAGA-------ACCGACACUCGAGACCCUCGGACUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
.((((((....(((((.-------.......)))))((((((..(((........((....))..((((........)))).)))..)))))))))))) ( -30.90)
>DroYak_CAF1 21320 96 + 1
CGAACCGUUUUUCGAGACCCA---ACCGACACUCGAGACCCUAGCACUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
((((......)))).(((((.---..((.....))(((((((.....((((.....))))..(((((((........)))).)))..)))))))))))) ( -28.40)
>consensus
AGAAAC______CGAGACCCGAGACCCGACACUCGAGACCCUCGCGCUGAAUAAACUUUAAAGACCCAAGACAUCAAUUGGCGUCAAGGGGUCUGGGUC
............((((...............)))).(((((......((((.....)))).((((((..(((..(....)..)))...))))))))))) (-21.50 = -21.70 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:30 2006