Locus 4870

Sequence ID 3L_DroMel_CAF1
Location 13,607,909 – 13,608,021
Length 112
Max. P 0.804287
window7688

overview

Window 8

Location 13,607,909 – 13,608,021
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.96
Mean single sequence MFE -24.41
Consensus MFE -20.55
Energy contribution -20.72
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.84
SVM decision value 0.63
SVM RNA-class probability 0.804287
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13607909 112 - 23771897
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAAGGAAACGUCCCUUUUAAGCAACCAGAAUACACAAAAAAAAA--------ACACA
(((((((((((.(.....((((........)))).....)))))))))))).......((.((.((((.......)))).)).))......................--------..... ( -24.80)
>DroSec_CAF1 15090 115 - 1
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAAGGAAACUUCCCUUUUAAGCAACCAGAAUACAAAACAAAGAA-----AAAACACA
(((((((((((.(.....((((........)))).....))))))))))))((.(((((.....(((....))).)))))...))......................-----........ ( -26.40)
>DroSim_CAF1 24065 112 - 1
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAAAAAAACUUCCCUUUUAAGCAACCAGAAUACAAAAUAAAAAA--------AAACA
(((((((((((.(.....((((........)))).....))))))))))))((.(((((................)))))...))......................--------..... ( -21.99)
>DroEre_CAF1 17646 119 - 1
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAUGCAAACUUUCCUUUUAAGCAGCCAGAAUACAAAAAAAUAA-AGAAAAAAAAACA
((((((......(((........)))..(((((((...(((((............)))))...........(((.......))))))))))...............-......)))))). ( -23.60)
>DroYak_CAF1 21845 120 - 1
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAUGCAAACUUUCCUUUUAAGCAACCAGAAUGAAAAAAAAAAAACGAAGCGAAAACA
(((((((((((.(.....((((........)))).....))))))))))))((.....((......))....((((.((((........)))).)))).............))....... ( -22.30)
>DroAna_CAF1 50891 92 - 1
GCUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACGAGGAGAGUUCGCUUCAAAGA--------------------AA--------ACAAA
((((....))))...((((((..(((....))).((((.(((((((.....(((...))).)))))))...))))))))))....--------------------..--------..... ( -27.40)
>consensus
GUUUUUACGAGCGACUGAAGCCUGUCAAUUGGCUGAAUGCCUCGUAAAAAUGCCAGAGGCCUACAAGGAAACUUCCCUUUUAAGCAACCAGAAUACAAAAAAAAAAA________AAACA
(((((((((((.(.....((((........)))).....))))))))))))(((...)))............................................................ (-20.55 = -20.72 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:44 2006