Locus 1265

Sequence ID 2R_DroMel_CAF1
Location 4,931,776 – 4,931,896
Length 120
Max. P 0.811207
window2192

overview

Window 2

Location 4,931,776 – 4,931,896
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -34.27
Consensus MFE -22.47
Energy contribution -23.70
Covariance contribution 1.23
Combinations/Pair 1.10
Mean z-score -1.99
Structure conservation index 0.66
SVM decision value 0.65
SVM RNA-class probability 0.811207
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4931776 120 - 20766785
UAAUAAGCGUUUAGAGCCAACGCUAAUUGCCAACGCCUCCAGCGGCGGGUAAAAUGGCAAAAAAGGGAAAACCCAGGACGGCAAGUUGGCCAAACAAUUGCCGGCUAUGUGGGCGAGCAG
......((((((.(.((((((((((.(((((..((((......)))))))))..))))......(((....)))..........)))))))))))..(((((.((...)).))))))).. ( -42.00)
>DroSim_CAF1 9 119 - 1
UAAUAAGCGUUUAGAGCCAACGCUAAUUGCCAACGCCUCCAGCGGCAGGAAAAAUGGCAAA-AAGGGAAAACCCCGGACGGCAAGUUGGCCAAACAAUUGGCGGCUAUGUGGGCGAGCAG
.......((((((.((((...(((((((((((((((((((...(.((.......)).)...-..(((.....)))))).)))..)))))).....)))))))))))...))))))..... ( -38.70)
>DroAna_CAF1 2361 108 - 1
UAAUAAGCGUUUAGUGCCAACGCUAAUUGCCAACGCCCUCAGAAGCG---AAAAUGGCAAG-AAAAUAUAA----GGA--GCAAG--GAACAAUAAAUAAUAGUUGAUGUGGGCGAGCAG
......(((.((((((....)))))).)))...(((((.((...((.---......))...-.........----...--.....--...((((........)))).)).)))))..... ( -22.10)
>consensus
UAAUAAGCGUUUAGAGCCAACGCUAAUUGCCAACGCCUCCAGCGGCGGG_AAAAUGGCAAA_AAGGGAAAACCC_GGACGGCAAGUUGGCCAAACAAUUGCCGGCUAUGUGGGCGAGCAG
.....((((((.......))))))..(((((.((((((((....((..........))......(((....))).))).)))....(((((...........))))).)).))))).... (-22.47 = -23.70 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:26 2006