Locus 4940

Sequence ID 2R_DroMel_CAF1
Location 16,110,280 – 16,110,383
Length 103
Max. P 0.808726
window7917

overview

Window 7

Location 16,110,280 – 16,110,383
Length 103
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 87.38
Mean single sequence MFE -33.96
Consensus MFE -23.36
Energy contribution -22.56
Covariance contribution -0.80
Combinations/Pair 1.22
Mean z-score -2.39
Structure conservation index 0.69
SVM decision value 0.64
SVM RNA-class probability 0.808726
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16110280 103 + 20766785
GAUGCCGAGAGUUGUUGACUCGAGGCAG--UGGCAGU--UCGAUUUUAUGUGUCA------GUUGAACCGAAACUGGCCAAAGAUCAACAUAGUUGGCUAAACAAUUGCGAGA--
..((((..(((((...)))))..)))).--..(((((--(.((((((.((.((((------(((.......)))))))))))))))......(((.....)))))))))....-- ( -31.90)
>DroSec_CAF1 32032 103 + 1
GAUGCCGAGAGUUGUUGACUCGAGCCAG--UGGCAGU--UCGAUUUUAUGUGCCA------GUUGAAUCGAAACUGGCCAAAGAUCAACAUAGUUGGCUAAACAAUUGCGAGA--
...((((((((((...)))))..(((..--.))).((--(.((((((.((.((((------(((.......))))))))))))))))))....)))))...............-- ( -30.50)
>DroSim_CAF1 32128 103 + 1
GAUGCCGAGAGUUGUUGACUCGAGGCAG--UGGCAGU--UCGAUUUUAUGUGCCA------GUUGAACCGAAACUGGCCAAAGAUCAACAUAGUUGGCUAAACAAUUGCGAGA--
..((((..(((((...)))))..)))).--..(((((--(.((((((.((.((((------(((.......)))))))))))))))......(((.....)))))))))....-- ( -34.60)
>DroYak_CAF1 31887 103 + 1
CAUGCUGAGAGUUGUUGACUCGAGGCAG--UGGCAGU--UCGAUUUUAUGUGCCA------GUUGAACCGAAACUGGCCAAAGAUCAACAUAGUUGGCUAAACAAUUGCGAGA--
((((((..(((((...)))))..)))).--))(((((--(.((((((.((.((((------(((.......)))))))))))))))......(((.....)))))))))....-- ( -32.80)
>DroAna_CAF1 33624 115 + 1
GCUGCCGAGAGUCUCUGACUUGAGGCAGACUGGCAGUGCCCGAUUUAAUGUGUCAGUUUCAGUUGAAUCGAAACUGACUGGAGAUCAACAUAGCUAGCUAAACAAUUGCCAACCU
.(((((..(((((...)))))..)))))..(((((((....(((((.....(((((((((.........)))))))))...)))))....(((....)))....))))))).... ( -40.00)
>consensus
GAUGCCGAGAGUUGUUGACUCGAGGCAG__UGGCAGU__UCGAUUUUAUGUGCCA______GUUGAACCGAAACUGGCCAAAGAUCAACAUAGUUGGCUAAACAAUUGCGAGA__
..((((..(((((...)))))..)))).....(((((....((((((.((.((((......(((.......)))))))))))))))....(((....)))....)))))...... (-23.36 = -22.56 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:47 2006