Locus 3658

Sequence ID 2R_DroMel_CAF1
Location 12,137,187 – 12,137,307
Length 120
Max. P 0.875199
window5953

overview

Window 3

Location 12,137,187 – 12,137,307
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.44
Mean single sequence MFE -38.03
Consensus MFE -32.74
Energy contribution -32.63
Covariance contribution -0.11
Combinations/Pair 1.17
Mean z-score -1.92
Structure conservation index 0.86
SVM decision value 0.89
SVM RNA-class probability 0.875199
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12137187 120 - 20766785
GGCGGCGAUCAUCAGGUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUUUCGCACAUCAUCGUGCGGAACAUGCCCUUGGCCAGCGCCGAAACCAGGCCCGUUGGCCC
((((((((((....))))........((((....))))........)))..........((((((((......))))))))...)))...((((((((((.......)))..))))))). ( -38.40)
>DroVir_CAF1 28034 120 - 1
AGCGGCAAUCAUUAAAUUAAUCACAAUAUCAACAGGUACCAUAUCGGCCACAUAGUUCUUUUCGCACAUCAUUGUGCGGAAGAGGCCCUUGGCCAGCGCCGAGACUAGACCCGUUGGCCC
...(((.........(((......)))..((((.(((......((((((.......(((((.((((((....)))))))))))((((...)))).).)))))......))).))))))). ( -39.20)
>DroWil_CAF1 33364 120 - 1
GGCGGCAAUCAUUAGAUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUUUCGCACAUCAUAGUGCGGAAUAGGCCUUUGGCCAAAGCCGAGACUAGACCCGUUGGCCC
...(((((((....))))...........((((.(((......(((((...........((((((((......))))))))..((((...))))...)))))......))).))))))). ( -39.50)
>DroMoj_CAF1 34131 120 - 1
GGCCGCAAUCAUUAAAUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUUUCGCACAUCAUCGUGCGGAAGAGGCCCUUGGCCAGCGCCGAGACUAGACCCGUUGGCCC
((((...........(((......)))...(((.(((......((((((.......(((((.(((((......))))))))))((((...)))).).)))))......))).))))))). ( -38.10)
>DroAna_CAF1 22244 120 - 1
GGCGGCAAUCAUCAGGUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUCUCGCACAUCAUCGUGCGGAACAUGCCCUUGGCCAGCGCCGAGACCAAGCCAGUCGGCCC
(((((((.......(((..((.....((((....))))....))..))).....((((....(((((......))))))))).))))((((((....)))))).....)))......... ( -35.60)
>DroPer_CAF1 24319 120 - 1
GGCGGCAAUCAUUAGAUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUCUCGCACAUCAUCGUGCGGAACAUGCCCUUGGCCAGCGCCGAGACCAGACCCGUCGGCCC
...(((((((....))))...........((((.(((......((((((.....((((....(((((......)))))))))..(((...)))..).)))))......))).))))))). ( -37.40)
>consensus
GGCGGCAAUCAUUAGAUUAAUCACAAUAUCGACAGGUACCAUAUCGGCCACAUAGUUCUUUUCGCACAUCAUCGUGCGGAACAGGCCCUUGGCCAGCGCCGAGACCAGACCCGUUGGCCC
...(((((((....))))...........((((.(((......(((((...........((((((((......))))))))...(((...)))....)))))......))).))))))). (-32.74 = -32.63 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:06 2006