Locus 3874

Sequence ID 2L_DroMel_CAF1
Location 11,344,057 – 11,344,156
Length 99
Max. P 0.508071
window6094

overview

Window 4

Location 11,344,057 – 11,344,156
Length 99
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 84.52
Mean single sequence MFE -20.67
Consensus MFE -16.32
Energy contribution -16.93
Covariance contribution 0.61
Combinations/Pair 1.11
Mean z-score -1.56
Structure conservation index 0.79
SVM decision value -0.05
SVM RNA-class probability 0.508071
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11344057 99 + 22407834
AAGACUGACCUACAAAGGAGCAGCAGACAAUGGCAGAUGACCUCAUAAAUUGCAUCGUUAUGAGGUUCAUAA----AUAAAUUAUUGCUUCAUAUUCAUAAUG
................((((((((........))..((((((((((((.........)))))))).))))..----.........))))))............ ( -21.00)
>DroPse_CAF1 76306 99 + 1
AAGGCUGACCUACAAAGGAGCUCAAGACAAUGCCCGAUGACCUCAUAAACUGCCUCGUUAUGAGGUUCAUAA----ACAUAUUACGGCUUCAUAUUCAUAAUG
.((((((.........((.((..........)))).((((((((((((.(......))))))))).))))..----........))))))............. ( -22.30)
>DroEre_CAF1 64524 99 + 1
GAGACUGACCUACAAAGGAGCUGCAGACAAUGGCAGAUGACCUCAUAAAUUGCAUCGUUAUGAGGUUCAUAA----AUAUAUUAUGGCUUCAUAUUCAUAAUG
........(((....)))..((((........))))((((((((((((.........)))))))).))))..----...((((((((........)))))))) ( -21.70)
>DroWil_CAF1 69259 87 + 1
---------CGACAAACGA-------ACAAAAGCAGAUGACCUCAUAAAUAGCCUCGUUAUGAGGUUCAUAAAUAAAUAUAUUAUUGCUUCAUAUUCAUAAUG
---------........((-------(...((((((((((((((((((.........)))))))).)))).((((....)))).))))))....)))...... ( -16.50)
>DroAna_CAF1 54779 99 + 1
ACGGAUGACCUACAAAGGAGCUGCAGACAAUGCCAGAUGACCUCAUAAAUUGGCUCGUUAUGAGGUUCAUAA----AAAUAUUAUUGCUUCAUAUUCAUAAUG
..((....))......(((((.(((.....)))...((((((((((((.........)))))))).))))..----..........)))))............ ( -20.60)
>DroPer_CAF1 76769 99 + 1
AAGGCUGACCUACAAAGGAGCCCAAGACAAUGCCCGAUGACCUCAUAAACUGCCUCGUUAUGAGGUUCAUAA----AAAUAUUACGGCUUCAUAUUCAUAAUG
.(((....))).....((((((..............((((((((((((.(......))))))))).))))..----.........))))))............ ( -21.91)
>consensus
AAGGCUGACCUACAAAGGAGCUGCAGACAAUGCCAGAUGACCUCAUAAAUUGCCUCGUUAUGAGGUUCAUAA____AUAUAUUAUGGCUUCAUAUUCAUAAUG
................((((((..............((((((((((((.........)))))))).))))...............))))))............ (-16.32 = -16.93 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:25 2006