Locus 3523

Sequence ID 3R_DroMel_CAF1
Location 9,515,724 – 9,515,844
Length 120
Max. P 0.887907
window5664

overview

Window 4

Location 9,515,724 – 9,515,844
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.22
Mean single sequence MFE -29.80
Consensus MFE -25.05
Energy contribution -24.30
Covariance contribution -0.75
Combinations/Pair 1.31
Mean z-score -2.32
Structure conservation index 0.84
SVM decision value 0.95
SVM RNA-class probability 0.887907
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9515724 120 + 27905053
GGAGCUGUUUGAGUUUAUAAAACUCGAGGAUAUCCGCACUCUGUGCGUUUACUUCGUGGAGAACUUCAGCAAGAUAUUUGAUGAAAUCGAAUACGUGCAGACAUUUAAGUACUUGAAGAA
(((..(.((((((((.....)))))))).)..)))....(((.((((.......)))).))).((((((((...((((((((...))))))))..)))..((......))...))))).. ( -28.70)
>DroVir_CAF1 7686 120 + 1
GGAGCUAUUUGAGUUUAUAAAACUCGAGGAUAUACGUACGCUGUGCGUAUACUUCGUGGAGAACUUUAGCAAGAUAUUUGAUGAAAUCGAAUAUGUGCAAACAUUUAAAUACCUAAAGAA
..((.(((((((((........(.(((((.(((((((((...)))))))))))))).)..........(((..(((((((((...))))))))).)))....))))))))).))...... ( -31.20)
>DroGri_CAF1 6709 120 + 1
GGAAUUAUUUGAGUUUAUAAAACUCGAGGAUAUACGCACAUUGUGUGUAUACUUUGUGGAAAACUUUAGCAAGAUAUUUGAUGAAAUCGAAUAUGUGCAAACAUUUAAAUACCUAAAGAA
((...(((((((((........(.(((((.(((((((((...)))))))))))))).)..........(((..(((((((((...))))))))).)))....)))))))))))....... ( -28.40)
>DroWil_CAF1 2079 120 + 1
GGAAUUAUUCGAGUUUAUAAAACUCGAAGAUAUACGCACAUUGUGCGUGUAUUUUGUAGAGAAUUUUAGCAAGAUAUUUGAUGAAAUCGAAUAUGUGCAGACAUUCAAAUAUUUGAAGAA
.......((((((((.....))))))))(((((((((((...))))))))))).......((((.((.(((..(((((((((...))))))))).))).)).)))).............. ( -33.60)
>DroMoj_CAF1 6936 120 + 1
GGAAUUAUUCGAGUUUAUAAAACUUGAAGAUAUACGCACGCUGUGCGUAUACUUCGUGGAGAACUUUAGCAAGAUAUUUGAUGAAAUCGAAUACGUGCAAACAUUUAAAUACCUAAAGAA
((.....((((((((.....)))))((((.(((((((((...))))))))))))).....))).....(((...((((((((...))))))))..))).............))....... ( -28.00)
>DroAna_CAF1 8935 120 + 1
GGAGCUGUUUGAGUUUAUAAAACUCGAGGACAUUCGCACCCUGUGCGUCUACUUUGUGGAGAACUUUAGCAAGAUAUUUGAUGAAAUCGAAUAUGUGCAGACAUUCAAGUACUUGAAGAA
(((..(.((((((((.....)))))))).)..)))((((...))))((((.(((....))).......(((..(((((((((...))))))))).))))))).(((((....)))))... ( -28.90)
>consensus
GGAACUAUUUGAGUUUAUAAAACUCGAGGAUAUACGCACACUGUGCGUAUACUUCGUGGAGAACUUUAGCAAGAUAUUUGAUGAAAUCGAAUAUGUGCAAACAUUUAAAUACCUAAAGAA
.....(((((((((........(((((((.(((((((((...)))))))))))))).)).........(((...((((((((...))))))))..)))....)))))))))......... (-25.05 = -24.30 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:20 2006