Locus 4506

Sequence ID 3L_DroMel_CAF1
Location 12,998,550 – 12,998,649
Length 99
Max. P 0.764117
window7038

overview

Window 8

Location 12,998,550 – 12,998,649
Length 99
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -28.77
Consensus MFE -18.96
Energy contribution -18.93
Covariance contribution -0.03
Combinations/Pair 1.22
Mean z-score -2.03
Structure conservation index 0.66
SVM decision value 0.51
SVM RNA-class probability 0.764117
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12998550 99 + 23771897
CGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAAACA----GCUGCGCA-CUGCCUGCUGAAUGAGAGACUACGUGAAAGUUCU-UUUUAAGCUA-UUCGCUAAUU
.((((((......((((.(((((((..(((((....)----))))....-)))))))..).)))...))))))(((((((((..-.....)))).-)))))..... ( -28.30)
>DroPse_CAF1 4815 94 + 1
UGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAGAUCACAUGCUGUCCC-CUGUCUGUUGAAUGAGAGACUACGUGAGAGUUUU-UUA----------UGCUAAUA
..(((((...)))))((.(((((((.(((((..........)))))...-)))))))..))((((((((((.(....)))))))-)))----------)....... ( -29.30)
>DroEre_CAF1 5436 100 + 1
CGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAAACA----GUUGUACC-CUGCCUGCUGAAUGAGAGACUACGUGAAAGUUUUUUUUUAAGCUA-UUCGCUAAUU
.((((((......((((.(((((((.((((((....)----)))))...-)))))))..).)))...))))))((((((((((......))))).-)))))..... ( -29.70)
>DroYak_CAF1 5865 100 + 1
CGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAAACA----GCUGUACC-CUGCUUGCUGAAUGAGAGACUACGUGAAAGUUUUUUUUUAAGCUU-UUCGCUAAUU
.((((((......((((.(((((((.((((((....)----)))))...-)))))))..).)))...))))))((((((((((......)))).)-)))))..... ( -29.40)
>DroAna_CAF1 10180 101 + 1
CGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAAGCU----ACUCGGCUGUCGCCUGUUGAAUGAGAGACUACGUGAAAGUUUU-UUUUACGCUAAUUUGCUAAUU
.((((((...........(((((.((.((((..((..----.))..)))))))))))..........))))))(((((((...)-))))))((......))..... ( -26.60)
>DroPer_CAF1 4816 94 + 1
UGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAGAUCACAUGCUGUCCC-CUGUCUGUUGAAUGAGAGACUACGUGAGAGUUUU-UUA----------UGCUAAUA
..(((((...)))))((.(((((((.(((((..........)))))...-)))))))..))((((((((((.(....)))))))-)))----------)....... ( -29.30)
>consensus
CGUGGUUAAGGACCAUCUCAGGCAGAACAGCUAAACA____GCUGUACC_CUGCCUGCUGAAUGAGAGACUACGUGAAAGUUUU_UUUUAAGCUA_UUCGCUAAUU
(((((((......((((.(((((((.(((((..........)))))....)))))))..).)))...)))))))................................ (-18.96 = -18.93 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:13 2006