Locus 1486

Sequence ID 3R_DroMel_CAF1
Location 4,294,563 – 4,294,654
Length 91
Max. P 0.784924
window2470

overview

Window 0

Location 4,294,563 – 4,294,654
Length 91
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 90.31
Mean single sequence MFE -27.80
Consensus MFE -26.56
Energy contribution -26.44
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -1.27
Structure conservation index 0.96
SVM decision value 0.57
SVM RNA-class probability 0.784924
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4294563 91 + 27905053
GGAGCGUGUUGCUGCAUAAAUAAGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAG-GGAGGACAAG--AAGA-AGCGGCAGUCAGCCGUC
...((((((((...(........)...)))))))).(((((....)))))..........-..........--....-.(((((.....))))). ( -27.50)
>DroSec_CAF1 95897 91 + 1
GGAGCGUGUUGCAGCAUAAAUAAGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAG-GGAGGACAAG--AAGA-AGCGGCAGUCAGCCGUC
...((((((((...(........)...)))))))).(((((....)))))..........-..........--....-.(((((.....))))). ( -27.50)
>DroSim_CAF1 96516 91 + 1
GGAGCGUGUUGCAGCAUAAAUAAGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAG-GGAGGACAAG--AAGA-AGCGGCAGUCAGCCGUC
...((((((((...(........)...)))))))).(((((....)))))..........-..........--....-.(((((.....))))). ( -27.50)
>DroEre_CAF1 98926 95 + 1
GGAGCGUGUUGCAGCAUAAAUAGGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAACGGAGAGGGGGGCGAGGAAGCGGCAGCCAGCCGUC
...((((((((...(........)...)))))))).(((((....))))).........((((...((..(.((......)).)..))..)))). ( -30.30)
>DroYak_CAF1 99267 92 + 1
GGAGCGUGUUGCAGCAUAAAUAAGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAACGAAGGAGAAG--GAGG-AGGGGGAGUCGCCCGUC
...((((((((...(........)...)))))))).(((((....)))))..........(....).....--...(-(.(((......))).)) ( -26.20)
>consensus
GGAGCGUGUUGCAGCAUAAAUAAGAAUCAGCACGCGGCUGCAGCAGCGGCACAUGAAAAG_GGAGGACAAG__AAGA_AGCGGCAGUCAGCCGUC
...((((((((...(........)...)))))))).(((((....))))).............................(((((.....))))). (-26.56 = -26.44 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:47 2006