Locus 6605

Sequence ID X_DroMel_CAF1
Location 16,472,691 – 16,472,810
Length 119
Max. P 0.550851
window10789

overview

Window 9

Location 16,472,691 – 16,472,810
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.14
Mean single sequence MFE -35.86
Consensus MFE -28.78
Energy contribution -29.02
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.80
SVM decision value 0.03
SVM RNA-class probability 0.550851
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16472691 119 - 22224390
CAAACAAAAAGCGCUUACAAUAGAAGUCUAA-AAAUGCGUUUUUUAGAAUUCGAAGGGGCGCCGUGUGAUUACUUGGAAAUAACAAUGGGCCCGGUCUGCUUGGCGGCAUCGCGCUGCUU
........((((..........(((.(((((-(((.....)))))))).)))((..((((.((((((.(((.......))).)).))))))))..)).))))((((((.....)))))). ( -34.90)
>DroSec_CAF1 10672 118 - 1
CAAACAAAAAGCGCUUACAAUAGAAGUCUAA-AAAUGUGUU-UUUAGAAAUCGAAGGGGCGCCGUGUGAUUACUUGGAAAUAACAAGGGGCCCGGUCUGCUUGGCGGCAUCGCGCUGCUU
........((((..........((..(((((-(((....))-))))))..))((..((((.((.(((.(((.......))).))).)).))))..)).))))((((((.....)))))). ( -35.80)
>DroSim_CAF1 7951 117 - 1
CAAACAAAAAGCGCUUACAAUAGAAGUCUAA-AAAUGUGUU-UUUAGAAUUCGAAGGGGCGCAGUGUGA-UACUUGGAAAUAACAAGGGGCCCGGUCUGCUUGGCGGCAUCGCGCUGCUU
............((((......(((.(((((-(((....))-)))))).)))....))))(((((((((-(.((((.......))))..(((.((....)).)))...)))))))))).. ( -37.70)
>DroEre_CAF1 1899 118 - 1
CAAACAAAAAGCGCUUACAAUAGAAGUCUAA-AAAUGUGUU-UUUAGAAUUCGAAGGGGCGCCGUGUGAUUACUUGGAAAUAACAAGGGGCCCGGUCUGCUUGGCGGCAUCGCGCUGCUU
........((((..........(((.(((((-(((....))-)))))).)))((..((((.((.(((.(((.......))).))).)).))))..)).))))((((((.....)))))). ( -36.50)
>DroYak_CAF1 2673 119 - 1
CAAACAAAAAGCGCUUACAAUAGAAGUCUAAAAAAUGUGUU-UUUAGAAUUCGAAGGGGCGCAGUGUGAUUACUUGGAAAUAACAAGGGGCCCGGUCUGCUUAGCGGCAUCGCGCUGCUU
............((((......(((.((((((((.....))-)))))).)))....))))((((((((((..((((.......))))..((((..........).))))))))))))).. ( -34.40)
>consensus
CAAACAAAAAGCGCUUACAAUAGAAGUCUAA_AAAUGUGUU_UUUAGAAUUCGAAGGGGCGCCGUGUGAUUACUUGGAAAUAACAAGGGGCCCGGUCUGCUUGGCGGCAUCGCGCUGCUU
.....(((.(((((......(((....)))......))))).)))........(((.(((((.((((.....((((.......))))..(((.((....)).))).)))).))))).))) (-28.78 = -29.02 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:04 2006