Locus 3311

Sequence ID 3L_DroMel_CAF1
Location 9,709,029 – 9,709,123
Length 94
Max. P 0.632783
window5148

overview

Window 8

Location 9,709,029 – 9,709,123
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 82.74
Mean single sequence MFE -36.73
Consensus MFE -26.93
Energy contribution -27.91
Covariance contribution 0.98
Combinations/Pair 1.28
Mean z-score -1.68
Structure conservation index 0.73
SVM decision value 0.20
SVM RNA-class probability 0.632783
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9709029 94 + 23771897
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAAAUAAUGGUGUGCCGGCGGGUUUGGCUGAGAGCUGGACAGG---AUUUCUCCGGCUGUU
.(((((((((((..((....))..).)))).))))))............(((((.(((((..((.....))..)))...---...)).))))).... ( -36.00)
>DroVir_CAF1 4641 89 + 1
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAAAUGAUUGUGUGACGGCGCGUCUGGCUAAGAGAGCGGCAAU---UGCUGU-----UGUU
((((((((((((.....)))))))))..((((.((.(..(....)...).)).))))....)))...((.((((((...---.)))))-----).)) ( -33.40)
>DroSec_CAF1 4103 94 + 1
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAGAUAAUGGUGUGCCGGCGGGUCUGGCUAAGAGCUGGACAGG---AUUUCUCCGGCUGCU
((.(((((((((.....)))))))))..))(..(((((((.(((..(((.(((((.((.....))....))))))))..---)))))))).))..). ( -39.00)
>DroEre_CAF1 3643 94 + 1
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAGAUAAUGGUGUGCCGGCGGGUCUGGCUGAUAGCUGGGCAGG---AUUUCUCCGGCUGCU
((.(((((((((.....)))))))))..))(..(((((((.(((..(((.(((((..(((.....))).))))))))..---)))))))).))..). ( -40.50)
>DroYak_CAF1 12571 94 + 1
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAGAUGAUGGUGUGCCGGCGGGUCUGGCUGAUAGCUGGACAGG---AUUUAUCCGGCUGCU
((.(((((((((.....)))))))))..))(..((.(.(((((...(.(((((((..(((.....))).))))).)).)---..)))))).))..). ( -39.20)
>DroAna_CAF1 3275 97 + 1
GCGGCCAACUGUUGGUUGUAAUUGGUCAGCGUAGUGGAUAUGAUGGUGUGCCGGCGGGUCUGGUUCAAGGCCGGACAAUUGCCGUUUCCCGGAGGCA
((..((....(((((..(....)..)))))...(.(((.((...((....))((((.(((((((.....)))))))...)))))).))))))..)). ( -32.30)
>consensus
GCCGCCAGCUGCUGAUUGUAGUUGGUCAGCGUGGUGGAGAUAAUGGUGUGCCGGCGGGUCUGGCUGAGAGCUGGACAGG___AUUUCUCCGGCUGCU
.(((((((((((..((....))..).)))).))))))............(((((...(((((((.....)))))))............))))).... (-26.93 = -27.91 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:32 2006