Locus 5131

Sequence ID X_DroMel_CAF1
Location 13,405,989 – 13,406,090
Length 101
Max. P 0.547481
window8339

overview

Window 9

Location 13,405,989 – 13,406,090
Length 101
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 78.06
Mean single sequence MFE -27.52
Consensus MFE -17.96
Energy contribution -17.77
Covariance contribution -0.19
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value 0.03
SVM RNA-class probability 0.547481
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13405989 101 + 22224390
GAAAAUGCGGGAUACAAAAUACGUAG--AGAGCCAC--------GUUGGAAAAAAAA-------AAUAAUGGAAUGGCCACGCUUCACCGGCUGGUAUCAGCCCACAUUUCCAACCCA
........(((.........((((..--......))--------))((((((.....-------......((...(((...)))...))(((((....)))))....)))))).))). ( -23.40)
>DroSec_CAF1 1872 107 + 1
GGAAAUGCGGGGUACAAAAUAUUAAGAGAGAGCCACCUCGUUUCGUUGGAAA----A-------AAUAAUGGAAUAGCCACGCUUCACCGGCUGGGAUCAGCCCACAUUUCCAACCCA
.((((((.(((((.(..............).))).)).))))))((((((((----.-------......((...(((...)))...))(((((....)))))....))))))))... ( -31.04)
>DroSim_CAF1 1863 107 + 1
GGAAAUGCGGGGUACAAAAUAUUAAGAGAGAGCCACCACGUUUCGUUGGAAA----A-------AAUAAUGGAAUAGCCACGCUUCACCGGCUGGGAUCAGCCCACAUUUCCAACCCA
.((((((.(((((.(..............).))).)).))))))((((((((----.-------......((...(((...)))...))(((((....)))))....))))))))... ( -31.44)
>DroYak_CAF1 9668 102 + 1
--------GGGUUACAAAAUAUGG----AGAGCCA---CGUUUCGCUGGAAAAAAAAGAAGAAUAAUAAUAGAAUGGCUACGCUUCACCGGCUGGGAUCAGCCCACUUUUCCG-CCCA
--------((((....(((..(((----....)))---..)))....((((((....((((..((.((......))..))..))))...(((((....)))))...)))))))-))). ( -24.20)
>consensus
GGAAAUGCGGGGUACAAAAUAUGAAG__AGAGCCAC__CGUUUCGUUGGAAA____A_______AAUAAUGGAAUAGCCACGCUUCACCGGCUGGGAUCAGCCCACAUUUCCAACCCA
........(((...................(((...........)))(((((..................((...(((...)))...))(((((....)))))....)))))..))). (-17.96 = -17.77 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:47 2006