Locus 1990

Sequence ID 3R_DroMel_CAF1
Location 5,625,743 – 5,625,863
Length 120
Max. P 0.677897
window3251

overview

Window 1

Location 5,625,743 – 5,625,863
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.03
Mean single sequence MFE -46.65
Consensus MFE -39.19
Energy contribution -39.25
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.74
Structure conservation index 0.84
SVM decision value 0.30
SVM RNA-class probability 0.677897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5625743 120 + 27905053
AGUUCCGAGAGUGGCGCAUAAAGUCAAUCGAGGGAUUACGUGAGUGCAACAUGGGAGCUGGGGGAUUGGCACCAUUGCCAGUGCUACCUGUGCGACCAAGGCGCAGAUCCCAUGAUGAAU
((((((..((.((((.......)))).))..))))))((....)).((.(((((((.....((.(((((((....))))))).))..((((((.......)))))).))))))).))... ( -46.70)
>DroSim_CAF1 91 120 + 1
AGUUCCGCGAGUGGCGCAUAAAGUCCAUCGAGGGAUUACGUGAGUGCAACAUGGGAGCUGGGGGAUUGGCACCAUUGCCAGUGCUACCUGUGCGACCAAGGCGCAGAUCCCAUGAUGAAU
((((((.(((.(((.((.....)))))))).))))))((....)).((.(((((((.....((.(((((((....))))))).))..((((((.......)))))).))))))).))... ( -46.60)
>DroEre_CAF1 481 120 + 1
AGUUGCGCGAGUGCCGCAUGAAGUCCAUCGAGGGAUUGCGUGAGUGCAGCAUGGGAGCUGGAGGAUUGGAACCAUUGCCAGUGCUGCCUGUGCGACCCAGGCGCAGAUCCCAUGAUGAAU
.(((((((........((((.(((((......))))).)))).)))))))((((((.(((.((.(((((........))))).))(((((.......))))).))).))))))....... ( -45.90)
>DroYak_CAF1 91 120 + 1
AGUUGCGCGAGUGCCGCAUAAAGUCCAUCGAGGGAUUGCGUGAGUGCAGCAUGGGAGCUGGAGGGUUGGCACCAUUGCCAGUGCUGCCUGUGCGACCCAGGCGCAGAUCCCAUGAUGAAU
.(((((((.....(((((....((((......)))))))).).)))))))((((((.(((.((.(((((((....))))))).))(((((.......))))).))).))))))....... ( -47.40)
>consensus
AGUUCCGCGAGUGCCGCAUAAAGUCCAUCGAGGGAUUACGUGAGUGCAACAUGGGAGCUGGAGGAUUGGCACCAUUGCCAGUGCUACCUGUGCGACCAAGGCGCAGAUCCCAUGAUGAAU
.((.(((....))).))........(((((.((((((......((((....(((..((.((((.(((((((....))))))).)).))...))..)))..)))).)))))).)))))... (-39.19 = -39.25 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:27 2006