Locus 4092

Sequence ID 3R_DroMel_CAF1
Location 11,166,638 – 11,166,735
Length 97
Max. P 0.661943
window6553

overview

Window 3

Location 11,166,638 – 11,166,735
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 73.95
Mean single sequence MFE -30.67
Consensus MFE -19.30
Energy contribution -20.47
Covariance contribution 1.17
Combinations/Pair 1.25
Mean z-score -1.27
Structure conservation index 0.63
SVM decision value 0.27
SVM RNA-class probability 0.661943
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11166638 97 + 27905053
GAGGCCCC--A----AUACACAGACCGGUUCCAACCAGUGCCCAGCUGGACGAACUGGAGCGGAACGUGGUUGUGCGCCACCACAAGAACAACGUGCCACUGA
........--.----.....(((.(((((((...(((((.....)))))..)))))))...((.(((((.(((((......)))))...).)))).)).))). ( -29.20)
>DroVir_CAF1 8765 103 + 1
CAGGCACAUGACGCAGCUGACGAACCGGCGCUAACCAGUGCACAGCUGGAUGAGCUGGAGCAGAAUGUGCAAUUGCGACAGCACAAGAACAAUGUGCCACGCA
..(((((((....((((((.((...))(((((....))))).))))))..((.((((..((((.........))))..)))).))......)))))))..... ( -37.70)
>DroEre_CAF1 7560 97 + 1
GUGACUCC--A----AAACUCAGACCGGUUCCAACCAGUGCCCAGCUGGACGAACUGGAGCGGAAUGUGGUUGUGCGCCAUCACAAGAACAACAUGCCACUGA
........--.----....((((.(((((((...(((((.....)))))..))))))).(((...(((..(((((......)))))..)))...)))..)))) ( -29.20)
>DroYak_CAF1 7516 97 + 1
GAGGCUCC--A----ACACCCAGACCGGUUCCAACCAGUGCCCAGCUGGAUGAACUGGAGCGGAAUGUGGUUAUGCGACACCACCGGAACAACGUGCCACAGA
..((((((--.----....((...(((((((...(((((.....)))))..)))))))...))...(((((........))))).))).......)))..... ( -29.61)
>DroMoj_CAF1 7650 97 + 1
GAGGC----GGCGCA--UGAUCAACCGGCAAUAACCAGUGCACAGCUGGAUGAGCUGGAACGGAAUGUGCUCAUGCGCCAUCACAGGAACAAUAUACCACGCA
...((----((((((--(((.((.((((((........))).(((((.....)))))...)))....)).)))))))))......((.........))..)). ( -34.10)
>DroAna_CAF1 7839 94 + 1
GAUCCGCC--A----AGGC---AACCGGUUCCAACUAGUGCCCAGCUGGAUGAGCUGGAGCGGAAUGUGAAGCUGCGCCACCACAAAAACAACAUACCCCUCA
........--.----.(((---..(((((((...(((((.....)))))..))))))).((((.........)))))))........................ ( -24.20)
>consensus
GAGGCUCC__A____ACACACAAACCGGUUCCAACCAGUGCCCAGCUGGAUGAACUGGAGCGGAAUGUGGUUAUGCGCCACCACAAGAACAACAUGCCACUCA
..(((...................(((((((...(((((.....)))))..)))))))........(((((........)))))...........)))..... (-19.30 = -20.47 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:55 2006