Locus 7889

Sequence ID 3R_DroMel_CAF1
Location 21,136,201 – 21,136,320
Length 119
Max. P 0.538659
window12705

overview

Window 5

Location 21,136,201 – 21,136,320
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 84.09
Mean single sequence MFE -40.50
Consensus MFE -30.53
Energy contribution -29.48
Covariance contribution -1.05
Combinations/Pair 1.39
Mean z-score -1.68
Structure conservation index 0.75
SVM decision value 0.01
SVM RNA-class probability 0.538659
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21136201 119 - 27905053
GAUGUUCCAACGGGAACACCAGGUUUACCACAAUGUCCUGCCCAAGCUCGAGGAAAUCUACAGAGAGGUGGGCAAGAAGGUGUCCUUUGGUCCAAGGGCCUUUAGGCUGGACUACAGCA
..((..((((.((((.((((.((....))......((.((((((..(((..((....))...)))...)))))).)).))))))))))))..))...........((((.....)))). ( -41.60)
>DroSec_CAF1 474 119 - 1
GAUGUUCCAACGGGAACAUCAGGUUUACCACAAUGUCCUGCCCAAGCUCGAGGAACUCUACAGAGAGGUGGGCAAGAAGGUGUCCUUUGGUCCGAGGGCCUUUAGGCUGGACUACAGCA
((((((((....))))))))(((..((((......((.((((((..(((..((....))...)))...)))))).)).)))).))).((((((...((((....))))))))))..... ( -45.70)
>DroSim_CAF1 208 119 - 1
GAUGUUCCAACGGGAACAUCAGGUUUACCACAGUGUCCUGCCCAAGCUCGAGGAACUCUACAGAGAGGUGGGCAAAAAGGUGACCUUUGGUCCAAGGGCCUUUAGGCUGGACUACAGCA
((((((((....))))))))(((((.(((....(((((.(((....(((..((....))...))).))))))))....)))))))).(((((((...(((....))))))))))..... ( -45.70)
>DroEre_CAF1 510 119 - 1
GAUGUUCCAAAGGGAGCACCAGGUUUACCACAAUGUCCUGCCCAAGUUCGAGGAACUCUACAGGGAGGUGGGCAAGGAGGUGUCCUUUGGUCCGCGAGCUUUUAAGCUGGACUACAACA
...(..(((((((..(((((.((....))......(((((((((..(((..(........)..)))..))))).))))))))))))))))..).(.((((....)))).)......... ( -41.70)
>DroYak_CAF1 475 119 - 1
GAUGUUCCAAAGGGAGCAACAGGUUUACCACAAUGUCCUGCCCAAGUUCGAGGCACUCUACAAGGAGGUGGGCAAGGAGGUGUCCUUUGGUCCGAGGGCAUUUAAGCUGGACUACAACA
..((((((....))))))..(((..((((.(..((((((((((......).))))((((....))))..)))))..).)))).))).((((((...(((......)))))))))..... ( -38.60)
>DroAna_CAF1 533 119 - 1
GCUGUUCCUGCGAGAGCAUCACAUGUACCACACCGUCUUGCCCAAGUUUGAACAGCUUUACAAAAACGUUGGCGCGAAUAUACGCUUUGCCCCCAGGGCCUUUAAGCUGGACCACCCUA
(((((((..((..(.(((..((.((.....))..))..))).)..))..)))))))............(..(((((......)))...((((...))))......))..)......... ( -29.70)
>consensus
GAUGUUCCAACGGGAACAUCAGGUUUACCACAAUGUCCUGCCCAAGCUCGAGGAACUCUACAGAGAGGUGGGCAAGAAGGUGUCCUUUGGUCCGAGGGCCUUUAAGCUGGACUACAGCA
(.((((((....)))))).)..(((...(((....((.((((((..(((.((.....))...)))...)))))).))..))).....((((((...((((....)))))))))).))). (-30.53 = -29.48 +  -1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:15 2006