Locus 3333

Sequence ID 2R_DroMel_CAF1
Location 11,339,908 – 11,340,016
Length 108
Max. P 0.627639
window5455

overview

Window 5

Location 11,339,908 – 11,340,016
Length 108
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 87.44
Mean single sequence MFE -36.88
Consensus MFE -27.60
Energy contribution -28.23
Covariance contribution 0.62
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.75
SVM decision value 0.19
SVM RNA-class probability 0.627639
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11339908 108 + 20766785
--------UGCUCCGGCUGCUACUGCUACCAGCUCCUCCAGAUACGACUCCUUCAGCUCCGGCCCCACGAAUGCCGGCUAACAAGAGGAGCAACCAAGCGCUGGGCUAUGCUAGCA
--------.(((..((..((....))..)).(((((((.......((.....))....(((((.........))))).......))))))).....)))(((((......))))). ( -34.20)
>DroSec_CAF1 127633 107 + 1
--------UGCUCCGGCUGCUACUGCUACCAGCUCCUCCAGAUACGACUCGUUCAGCUCCGGC-CCACGAAUGCCGGCUAACAAGAGGAGCAACCAAGCGCUGGGCUAUGCUAGCA
--------.(((..((..((....))..)).(((((((..((......))(((.(((..((((-........))))))))))..))))))).....)))(((((......))))). ( -36.70)
>DroSim_CAF1 133371 107 + 1
--------UGCUCCGGCUGCUACUGCUACCAGCUCCUCCAGAUACGACUCCUUCAGCUCCGGC-CCACGAAUGCCGGCUAACAAGAGGAGCAACCAAGCGCUGGGCUAUGCUAGCA
--------.(((..((..((....))..)).(((((((.......((.....))....(((((-........))))).......))))))).....)))(((((......))))). ( -35.00)
>DroYak_CAF1 130727 107 + 1
CUCUGCUCUGCUCCGGCUGC-----CUAGCAGCUCCUCCAGAUCCGACUCCUUCAGCUCCGGC-CCACGAAUGCCGGCCAGCAAGAGGAGCAACCAAGCA---GGCUGGCUCAGCA
..((((((((....((((((-----...))))))....))))...(.((((((..((((((((-........)))))..)))..)))))))......)))---)((((...)))). ( -41.60)
>consensus
________UGCUCCGGCUGCUACUGCUACCAGCUCCUCCAGAUACGACUCCUUCAGCUCCGGC_CCACGAAUGCCGGCUAACAAGAGGAGCAACCAAGCGCUGGGCUAUGCUAGCA
.........(((..(((.(((..((((....(((((((.......((.....))....(((((.........))))).......))))))).....))))...)))...)))))). (-27.60 = -28.23 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:00 2006