Locus 5078

Sequence ID 3R_DroMel_CAF1
Location 13,396,190 – 13,396,288
Length 98
Max. P 0.819093
window8278

overview

Window 8

Location 13,396,190 – 13,396,288
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 77.41
Mean single sequence MFE -17.72
Consensus MFE -12.73
Energy contribution -12.93
Covariance contribution 0.20
Combinations/Pair 1.25
Mean z-score -1.33
Structure conservation index 0.72
SVM decision value 0.67
SVM RNA-class probability 0.819093
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13396190 98 - 27905053
CAAAAAAAAGGUUGCCUAAUUUGUUCAGUUGGCUUGCACAUGGUUAAAAAAAAAAAAAGAAAUAAAAAUACCAGCUGGAGUAGCAAGGAUGAACCCCU
.........((((.(((..((..(((((((((......................................)))))))))..))..)))...))))... ( -15.06)
>DroSec_CAF1 29552 88 - 1
CGAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGAUUGCACACGGCUUGAAA--AAA------AUAAAA--ACCAGCUGGAAUAGCAAGGAUGAACCCCU
.........((((.(((......(((((((((...((.....))((....--)).------......--.)))))))))......)))...))))... ( -19.00)
>DroSim_CAF1 30374 90 - 1
CAAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGCUUGCACACGGUUUAAAAAAAAA------AUAAAA--ACCAGCUGGAAUAGCAAGGAUGAACCCCU
.........((((.(((......(((((((((.((....................------....))--.)))))))))......)))...))))... ( -16.76)
>DroEre_CAF1 30370 81 - 1
CGAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGCUUGCACAGUG---------AAA------AAAAAA--ACCAGCUGAAAUGGCAAGGCUGAACCCCU
.........((((((((......(((((((((.((........---------...------....))--.)))))))))......))))..))))... ( -20.16)
>DroYak_CAF1 34152 81 - 1
CGAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGCUUGCACAGAG---------AAA------AAAAAA--CCCAAUUGAAAUAGCAAGGCAGAACCCCU
.........((((((((......(((((((((.((........---------...------....))--.)))))))))......)))))..)))... ( -18.56)
>DroAna_CAF1 27467 80 - 1
CGAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGGUUGCACACAAAUAGUCCUGAAA------A------------CAGAAACAGCUGGGCUGAACCCCU
........(((...))).....((((((((.(((((...((.....)).(((...------.------------)))...))))).)))))))).... ( -16.80)
>consensus
CGAAUAAAAGGUUGCCUAAUUUGUUCAGUUGGCUUGCACACGG_U__AAA__AAA______AUAAAA__ACCAGCUGAAAUAGCAAGGAUGAACCCCU
.........((((.(((......(((((((((......................................)))))))))......)))...))))... (-12.73 = -12.93 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:37 2006