Locus 333

Sequence ID 3L_DroMel_CAF1
Location 961,855 – 961,958
Length 103
Max. P 0.689698
window499

overview

Window 9

Location 961,855 – 961,958
Length 103
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -22.31
Consensus MFE -15.08
Energy contribution -14.72
Covariance contribution -0.36
Combinations/Pair 1.16
Mean z-score -1.76
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.689698
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 961855 103 + 23771897
GGAUUCGGUUUCGCCG------GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC-------GGCACAACAAUGUCCGUG-AAAUGCAAAACAAUAACAGUACUAACGAUAGCAUU--
((((...(((..((((------((....))..((((((((......)))))))).)-------)))..)))...))))...-.(((((...((.......)).(....)...)))))-- ( -23.00)
>DroPse_CAF1 6069 100 + 1
GUAA--CGUAACGUUC------GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC-------GGCAAAACAAUGUCCGUGCAAAUGCAAAACAAUAACAAUACUAACGACAGCA----
(.((--((...)))))------((((.(((..((((((((......))))))))..-------.)))......(((...(((....)))..)))................)))).---- ( -20.20)
>DroWil_CAF1 6378 109 + 1
UGUU---GCUGCUCCU------GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUCCAGCUCUAGCACAACAAUGUCCGUG-AAAUGGAAAACAAUAACAAUAACAGCAACAGCAACAU
((((---((((....(------((((.(((..((((((((......))))))))((((..((....(((....)))....)-)..))))...........))).))))).)))))))). ( -30.50)
>DroYak_CAF1 4682 109 + 1
AGAUUCGGUUUCGCUGCUGUACGCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC-------GGCACAACAAUGUCCGUG-AAAUGCAAAACAAUAACAGUACUAACGAUAGCAUU--
.......((((((.((((((.......(((((((((((((......)))))))).(-------((.(((....))))))..-..)))))........))))))....))).)))...-- ( -21.06)
>DroAna_CAF1 4722 100 + 1
UGUUUCGGUUUCGUUC------GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC-------GGCAUAACAAUGUCCGUG-AAAUGCAAAACAAUAACAGAACUAACGAUAGC-----
((((...((((.((((------((........((((((((......))))))))..-------(((((....))))).)))-)...)).))))...))))..............----- ( -18.90)
>DroPer_CAF1 5407 102 + 1
GUAA--CGUAACGUUC------GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC-------GGCAAAACAAUGUCCGUGCAAAUGCAAAACAAUAACAAUACUAACGACAGCAGC--
(.((--((...)))))------((((.(((..((((((((......))))))))..-------.)))......(((...(((....)))..)))................))))...-- ( -20.20)
>consensus
GGAU__GGUUUCGCUC______GCUGAUGUAUGCAUAAAAUAAUCCUUUUAUGCUC_______GGCACAACAAUGUCCGUG_AAAUGCAAAACAAUAACAAUACUAACGACAGCA____
......................((((.(((..((((((((......)))))))).........((((......)))).............................))).))))..... (-15.08 = -14.72 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:29 2006