Locus 1184

Sequence ID 3R_DroMel_CAF1
Location 3,572,271 – 3,572,390
Length 119
Max. P 0.546455
window1937

overview

Window 7

Location 3,572,271 – 3,572,390
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.27
Mean single sequence MFE -34.68
Consensus MFE -26.72
Energy contribution -26.80
Covariance contribution 0.08
Combinations/Pair 1.30
Mean z-score -1.49
Structure conservation index 0.77
SVM decision value 0.03
SVM RNA-class probability 0.546455
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3572271 119 + 27905053
GAGCGUGCCGACGGUUGA-GAAUUUAUCUUGGGCUUAAUCAAUCAACCCGGGCACUGAAUAAAAUAUGUUCGACUGGUCGAGGAUAACCCACGGCCAUAAACGAGCAGCUCCCACAUUUU
(((((((((...((((((-....(((.........)))....))))))..)))))...........((((((..((((((.((.....)).))))))....))))))))))......... ( -39.60)
>DroSec_CAF1 23231 119 + 1
GAGCGCGUCGACGGUUGG-GAAUUUAUCUUGGGCUUAAUCAAUCAACCCGGGCACUGAAUAAAAUAUGUUCGACUGGUCGAGGGUAACCCACGGCUAUAAACGAGCAGCUCCCACAUUUU
((((((.(((..((((((-....(((.........)))....))))))))))).............((((((..((((((.(((...))).))))))....))))))))))......... ( -32.70)
>DroSim_CAF1 23590 119 + 1
GAGCGCGCCGACGGUUGG-GAAUUUAUCUUGGGCUUAAUCAAUCAACCCGGGCACUGAAUAAAAUAUGUUCGACUGGUCGAGGAUAACCCACGGCCAUAAACGAGCAGCUCCCACAUUUU
((((((.(((..((((((-....(((.........)))....))))))))))).............((((((..((((((.((.....)).))))))....))))))))))......... ( -36.30)
>DroEre_CAF1 28629 119 + 1
GAGCGUGCCGACGGUUGG-GAAUUUAUCUUGGGCUUAAUCAAUCAACCCGGGCACUGAAUAAAAUAUGUUCGACUGGCCGAGGAUAACCCACGGCCAUAAACGAGCAGCUCCCACAUUUU
(((((((((...((((((-....(((.........)))....))))))..)))))...........((((((..((((((.((.....)).))))))....))))))))))......... ( -41.40)
>DroAna_CAF1 18876 120 + 1
GAAUAUGUCGAUGCUGGGAGAAUUUAUCUUGAGCUUAAUCAAUCAACCCUAGCACUGAAUAAAAUAUCUCUGUCUGACGAAAAAUAUCUUAAGGCUAUAAAGGGGAAGCUCCGACAUUUU
....((((((.((((((((((.....)))(((......)))......)))))))............(((((((((...((......))...))))......))))).....))))))... ( -23.40)
>consensus
GAGCGUGCCGACGGUUGG_GAAUUUAUCUUGGGCUUAAUCAAUCAACCCGGGCACUGAAUAAAAUAUGUUCGACUGGUCGAGGAUAACCCACGGCCAUAAACGAGCAGCUCCCACAUUUU
(((((((((...((((((..........((((......))))))))))..)))))...........((((((..((((((.((.....)).))))))....))))))))))......... (-26.72 = -26.80 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:02 2006