Locus 1476

Sequence ID 2R_DroMel_CAF1
Location 5,635,275 – 5,635,395
Length 120
Max. P 0.922624
window2514

overview

Window 4

Location 5,635,275 – 5,635,395
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -26.66
Consensus MFE -22.96
Energy contribution -23.44
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.65
Structure conservation index 0.86
SVM decision value 1.15
SVM RNA-class probability 0.922624
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5635275 120 + 20766785
GCCUUCAAUUGAAGAACUGUAAAAGGAAGCACUACAACAAAGAAUUAUGAUAAAACCGUUCAAUUCCCAAAAAUUUGGCGAGUCGGCACAUGGCUUUGUCAAUUAAGGCCUUUCUUAGCA
((((((....))))........(((((((..((.(......).....(((((((.((((((.((((((((....)))).)))).))...)))).)))))))....))..))))))).)). ( -24.70)
>DroSec_CAF1 1904 120 + 1
GCCUUCAAUUGAAGAACUGUAAAAGGAAGCACUACAACAAAGAAUUAUAAUAAAGCCGUUCAAUUCCCAAAAAUUUGGCGAGUCGGCACAUGGCUUUGUCAAUUAAGGCCUUGCUUAGCA
((((((....))))............(((((.......................((((....((((((((....)))).))))))))....(((((((.....))))))).))))).)). ( -29.00)
>DroSim_CAF1 1985 120 + 1
GCCUUCAAUUGAAGAACUGUAAAAGGAAGCACUACAACAAAGAAUUAUAAUAAAGCCGUUCAAUUCCCAAAAAUUUGGCGAGUCGGCACAUGGCUUUGUCAAUUAAGGCCUUGCUUAGCA
((((((....))))............(((((.......................((((....((((((((....)))).))))))))....(((((((.....))))))).))))).)). ( -29.00)
>DroEre_CAF1 2324 120 + 1
GCCUUCAAUUGAACAACUGUAAAAGGAAGCACUACAACAGAGAAUAAUAAUAAAGCCGUUCAAUUCCCAAAAAUUUGGCGAUUCGGCACAUGGCUUUGUCAAUUAAGGCCUUUCUUAGCA
(((((.((((((....((((...((......))...))))..........(((((((((((((((.((((....)))).)))).))...))))))))))))))))))))........... ( -28.60)
>DroYak_CAF1 1955 118 + 1
GCCUUCAAUUGAAGAACUGUAAAAGAAAGCACUACAACAGAGAAUAAUAAUAAAGCCGUUCAAUUUCCA--AAUUUGGCGAGUCGGCACAUGGCUUUGUCAAUUAAGAUCUUUCUUAGCA
((((((....))))........(((((((..((.....))....((((.((((((((((((.(((((((--....))).)))).))...))))))))))..))))....))))))).)). ( -22.00)
>consensus
GCCUUCAAUUGAAGAACUGUAAAAGGAAGCACUACAACAAAGAAUUAUAAUAAAGCCGUUCAAUUCCCAAAAAUUUGGCGAGUCGGCACAUGGCUUUGUCAAUUAAGGCCUUUCUUAGCA
(((((.((((((.....(((...((......))...)))...........(((((((((((.((((((((....)))).)))).))...))))))))))))))))))))........... (-22.96 = -23.44 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:47 2006