Locus 1884

Sequence ID 3R_DroMel_CAF1
Location 5,400,858 – 5,400,978
Length 120
Max. P 0.634281
window3093

overview

Window 3

Location 5,400,858 – 5,400,978
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -33.30
Consensus MFE -22.67
Energy contribution -22.55
Covariance contribution -0.12
Combinations/Pair 1.19
Mean z-score -1.68
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.634281
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5400858 120 + 27905053
GUCCUUGCAUUGCACAUUCACACACCCAAGAGUGUGUGUAUGUCUGAAUUUUGUAAUUUUGUUAACACAGAAUUGAGAGAAGCUAAAACGGCUGCAGCGGAUUAUCCGUUGUGUAUCCUC
(((.((.....((.(((.(((((((......))))))).)))(((.((((((((............)))))))).)))...))...)).))).(((((((.....)))))))........ ( -33.60)
>DroSim_CAF1 10589 120 + 1
GUCCUUGCAUUGCACAUUCACACACCCAGGAGUGUGUGUAUGUCUGAAUUUUGUAAUUUUGAUAACACAGAAUUGAGAGAAGCUAAAACGGCUGCAGCGGAUUAUCCGUUGUGUAUCCUC
(((.((.....((.(((.(((((((......))))))).)))(((.((((((((............)))))))).)))...))...)).))).(((((((.....)))))))........ ( -33.60)
>DroYak_CAF1 11010 120 + 1
GUUCUUGCAUCGCACAGCCACACACGCACGAGUGUGUGUACGUCUGAAUUUUGUAAUUUUGAUAACACAGAAUUGAGAGAAGCUAAAACGGCUGCAGCGGAUUAUCCGUUGUGUAUCCUC
.....((((.....(((((((((((((....))))))))...(((.((((((((............)))))))).)))...........)))))((((((.....))))))))))..... ( -38.20)
>DroAna_CAF1 10484 119 + 1
CUUCUUGCACUGCAUACAACCAUACACGUGCGUGUAUGCGUCGCUGAAAUUAUUAAUUUUGAUAACACAGAAUUGAGAGAAGCUAAAACUGUUGCAGCAGAGU-CCAGUGGUGAAUUUUU
.......(((..(.....(((((((((....))))))).)).((((......(((((((((......)))))))))....(((.......))).)))).....-...)..)))....... ( -27.80)
>consensus
GUCCUUGCAUUGCACAUUCACACACCCAAGAGUGUGUGUAUGUCUGAAUUUUGUAAUUUUGAUAACACAGAAUUGAGAGAAGCUAAAACGGCUGCAGCGGAUUAUCCGUUGUGUAUCCUC
.....(((((..(......((((((((....))))))))..(((((.......((((((((......))))))))...(.(((.......))).)..))))).....)..)))))..... (-22.67 = -22.55 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:51 2006