Locus 5979

Sequence ID 2L_DroMel_CAF1
Location 16,864,886 – 16,864,981
Length 95
Max. P 0.886128
window9496 window9497

overview

Window 6

Location 16,864,886 – 16,864,981
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 97.54
Mean single sequence MFE -39.90
Consensus MFE -37.25
Energy contribution -37.50
Covariance contribution 0.25
Combinations/Pair 1.04
Mean z-score -2.18
Structure conservation index 0.93
SVM decision value 0.94
SVM RNA-class probability 0.886128
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16864886 95 + 22407834
UCGUUCGCUUGGAGCUCCGCCAGUUGGGCGAAGGUCGGGGGUCAGGAGACGGCGGAGCAGCGGGAUGGACGGGAUGUGCCAAUGCAAGAAAGGCG
(((((((((((..((((((((..((.(((....))).)).(((....)))))))))))..)))).))))))).....(((...........))). ( -40.00)
>DroSec_CAF1 4412 95 + 1
UCGUUCGCUUGGAGCUCCGCCAGUUGGACGAAGGUCGGGGUUCAGGAGACGGCGGAGCAGCGGCAUGGACGGGAUGUGCCAAUGCAAGAAAGGCG
.((((..((((.(((((((((..((.(((....))).)).....(....)))))))))...((((((.......))))))..).))))...)))) ( -39.00)
>DroSim_CAF1 6871 95 + 1
UCGUUCGCUUGGAGCUCCGCCAGUUGGACGAAGGUCGGGGGUCAGGAGACGGCGGAGCAGCGGCAUGGACGGGUUGUGCCAAUGCAAGAAAGGCG
.((((..((((.(((((((((..((.(((....))).)).(((....)))))))))))...((((..(.....)..))))..).))))...)))) ( -40.60)
>DroEre_CAF1 36669 95 + 1
UCGUUCGCUUGGAGCUCCGCCAGUUGGGCGAAGGUCGGGGGUCAGGAGACGGCGGAGCAGCGGGAUGGACGGGAUGUGCCAAUGCAAGAAAGGCG
(((((((((((..((((((((..((.(((....))).)).(((....)))))))))))..)))).))))))).....(((...........))). ( -40.00)
>consensus
UCGUUCGCUUGGAGCUCCGCCAGUUGGACGAAGGUCGGGGGUCAGGAGACGGCGGAGCAGCGGCAUGGACGGGAUGUGCCAAUGCAAGAAAGGCG
(((((((((((..((((((((..((.(((....))).)).....(....)))))))))..)))).))))))).....(((...........))). (-37.25 = -37.50 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,864,886 – 16,864,981
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 97.54
Mean single sequence MFE -29.30
Consensus MFE -27.30
Energy contribution -27.55
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.93
SVM decision value 0.56
SVM RNA-class probability 0.783501
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16864886 95 - 22407834
CGCCUUUCUUGCAUUGGCACAUCCCGUCCAUCCCGCUGCUCCGCCGUCUCCUGACCCCCGACCUUCGCCCAACUGGCGGAGCUCCAAGCGAACGA
.(((...........)))...............(((((((((((((((....)))...((.....)).......))))))))....))))..... ( -28.40)
>DroSec_CAF1 4412 95 - 1
CGCCUUUCUUGCAUUGGCACAUCCCGUCCAUGCCGCUGCUCCGCCGUCUCCUGAACCCCGACCUUCGUCCAACUGGCGGAGCUCCAAGCGAACGA
..........((((.(((.......))).))))((((((((((((.((....)).....(((....))).....))))))))....))))..... ( -28.80)
>DroSim_CAF1 6871 95 - 1
CGCCUUUCUUGCAUUGGCACAACCCGUCCAUGCCGCUGCUCCGCCGUCUCCUGACCCCCGACCUUCGUCCAACUGGCGGAGCUCCAAGCGAACGA
..........((((.(((.......))).))))(((((((((((((((....)))....(((....))).....))))))))....))))..... ( -31.60)
>DroEre_CAF1 36669 95 - 1
CGCCUUUCUUGCAUUGGCACAUCCCGUCCAUCCCGCUGCUCCGCCGUCUCCUGACCCCCGACCUUCGCCCAACUGGCGGAGCUCCAAGCGAACGA
.(((...........)))...............(((((((((((((((....)))...((.....)).......))))))))....))))..... ( -28.40)
>consensus
CGCCUUUCUUGCAUUGGCACAUCCCGUCCAUCCCGCUGCUCCGCCGUCUCCUGACCCCCGACCUUCGCCCAACUGGCGGAGCUCCAAGCGAACGA
.(((...........)))...............(((((((((((((((....)))...((.....)).......))))))))....))))..... (-27.30 = -27.55 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:00 2006