Locus 4601

Sequence ID 3R_DroMel_CAF1
Location 12,103,155 – 12,103,272
Length 117
Max. P 0.670200
window7562

overview

Window 2

Location 12,103,155 – 12,103,272
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 95.38
Mean single sequence MFE -30.59
Consensus MFE -24.57
Energy contribution -27.41
Covariance contribution 2.84
Combinations/Pair 1.09
Mean z-score -1.67
Structure conservation index 0.80
SVM decision value 0.29
SVM RNA-class probability 0.670200
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12103155 117 + 27905053
CAAGAAAAACGCUGAUGAAAAGCGAACGAAAGCAAGAGGAUAAUGGCGGGCGAUGGACUGGGUGACCAGUGAGCGGCAGCUGUGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........((((.......)))).......((((..........((.....(((((((((....)))))....((((.(...).))))))))....)).........))))..... ( -31.71)
>DroSec_CAF1 9013 113 + 1
CAAGAAAAACGCUGAUGAAAAGCGAACGAAAGCAAGAGGAUAAUGG----CGAUGGACUGGGUGACCAGUGAGCGGCAGCUGUGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........((((.......)))).......((((..........(----(.(((((((((....)))))....((((.(...).))))))))....)).........))))..... ( -31.31)
>DroSim_CAF1 8960 117 + 1
CAAGAAAAACGCUGAUGAAAAGCGAACGAAAGCAAGAGGAUAAUGGCGGGCGAUGGACUGGGUGACCAGUGAGCGGCAGCUGUGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........((((.......)))).......((((..........((.....(((((((((....)))))....((((.(...).))))))))....)).........))))..... ( -31.71)
>DroEre_CAF1 8832 115 + 1
CAAGAAAAACAC--AUGAAAAGUGAACGAAAGCAAAAGGAUAAUGGCGGGCGAUGGACUGGGUGACCAGUGAGCAGCAGCUGUGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........(((--.......))).......((((..........((.....(((((((((....)))))..(((.((....)).))).))))....)).........))))..... ( -26.11)
>DroYak_CAF1 8824 117 + 1
CAGGAAAAACGCUGAUGAAAAGCGAACGAAAGCAAGAGGAUAAUGGCGGGCAAUGGACUGGGUGACCAGUGAGCAGCAGCUGCGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........((((.......))))..(....).............(.(((((....(((((....)))))..((((...))))..))))))......((((.......))))..... ( -32.10)
>consensus
CAAGAAAAACGCUGAUGAAAAGCGAACGAAAGCAAGAGGAUAAUGGCGGGCGAUGGACUGGGUGACCAGUGAGCGGCAGCUGUGGUGCCCCAUAAAAGCAAGGACAAAUUGCGGAUU
.........((((.......)))).......((((..........((.....(((((((((....)))))..(((.(......).))).))))....)).........))))..... (-24.57 = -27.41 +   2.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:18 2006