Locus 1559

Sequence ID 3R_DroMel_CAF1
Location 4,462,434 – 4,462,542
Length 108
Max. P 0.809729
window2575

overview

Window 5

Location 4,462,434 – 4,462,542
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 96.85
Mean single sequence MFE -27.36
Consensus MFE -25.06
Energy contribution -24.62
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.35
Structure conservation index 0.92
SVM decision value 0.64
SVM RNA-class probability 0.809729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4462434 108 + 27905053
CCGCAUUCGAGAAUCGACAUUGGGGAAUCAAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCAAGUGAACUUUGCACACCUUGCAGGUGGCAAAAA
((.((.(((.....)))...)).))..(((.....(....)...)))..((((...(((......)))...)))).......(((((.((((.....))))))))).. ( -26.80)
>DroSec_CAF1 15368 108 + 1
CCGCAUUCGAGAAUCGACAUUGGGGAAUCGAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCAAGUGAACUUUGCACACCUUGCAGGUGGCAAAAA
.(((.(((((...((.......))...)))))...(....)..)))...((((...(((......)))...)))).......(((((.((((.....))))))))).. ( -26.10)
>DroSim_CAF1 15816 108 + 1
CCGCAUUCGAGAAUCGACAUUGGGGAAUCGAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCAAGUGAACUUUGCACACCUUGCAGGUGGCAAAAA
.(((.(((((...((.......))...)))))...(....)..)))...((((...(((......)))...)))).......(((((.((((.....))))))))).. ( -26.10)
>DroEre_CAF1 15647 108 + 1
CCACAUUCGAGAGUCGACAUUGGGGAAUCAAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCGAGUGAACUUCGCACACCUUGCAGGUGGCAAAAA
...((((((.((((((...((((....))))....(....)........)))))).........((.....))))))))......((.((((.....))))))..... ( -26.40)
>DroYak_CAF1 16926 108 + 1
CCACAUUCGAGAAUCGGCAUUGAGGAAUCAAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCGAGUGAACUUUGCACACCUUGCAGGUGGCAAAAA
...((((((..(((..(((((..............(....)((((......))))......)))))..)))..))))))...(((((.((((.....))))))))).. ( -31.40)
>consensus
CCGCAUUCGAGAAUCGACAUUGGGGAAUCAAGAAAGGAAACGGGUGAAAUGGCUCAUAGAAAAUGCUAAUUGCCAAGUGAACUUUGCACACCUUGCAGGUGGCAAAAA
((.((.(((.....)))...)).))..(((.....(....)...)))..((((...(((......)))...)))).......(((((.((((.....))))))))).. (-25.06 = -24.62 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:31 2006