Locus 6123

Sequence ID 2R_DroMel_CAF1
Location 19,257,005 – 19,257,104
Length 99
Max. P 0.634852
window9806

overview

Window 6

Location 19,257,005 – 19,257,104
Length 99
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.70
Mean single sequence MFE -50.65
Consensus MFE -34.20
Energy contribution -35.58
Covariance contribution 1.37
Combinations/Pair 1.11
Mean z-score -1.70
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.634852
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19257005 99 - 20766785
AGGCGCAGGCUU---------CGCAGGCUCCGGCGGCUGAGGCGUCAGGAGAGGCGCCA------------GGAGAUUCGCCGGGAGAGGCAGCAGGAAAGGCGCCAGCAGAGUCGUGCU
.(((((.((((.---------.((...(((((((((((..((((((......)))))).------------))....))))).)))).(((.((.......))))).))..))))))))) ( -44.80)
>DroSec_CAF1 47345 111 - 1
AGGCGCCGGCUU---------CGCAGGCUCCGCCGGCUGAGGCGUCAGGAGAGGCGCCAAGAGAGGCGGCAGGAGAUUCGCCGGGAGAGGCAGCAGGAAAGACGCCAGCAGAGGCGUGCU
.((((((..(((---------(((..(((((((((.((..((((((......)))))).....)).)))).)))).)..))..)))).)))..........(((((......)))))))) ( -47.80)
>DroSim_CAF1 46737 120 - 1
AGGCGCAGGCUUCGCAGGCUUCGCAGGCUCCGCCGCCUGAGGCGUCAGGAGAGGCGCCAGGAGAGGCGGCAGGAGAUUCGCCGGGAGAGGCAGCAGGAAAGACGCCAGCAGAGGCGUGCU
....(((.(((((((.(((.((.(..((((((((((((..((((((......)))))).....))))))).))).....(((......))).))..)...)).))).)).))))).))). ( -58.70)
>DroYak_CAF1 47444 111 - 1
AGGCGCAGGCUU---------CGCAGGCUCCGGCGGCUCAGGCGGCAGGAGAGGCGUCAGGCGAGGCGCCAGGAGAUUCGCUGGGAGAGGCAGCAGGAGAGACGCCAGGAGAGGCGUGCG
...((((.((((---------(.....((((.((.((....)).)).)))).((((((.((((...)))).........((((.......))))......))))))....))))).)))) ( -51.30)
>consensus
AGGCGCAGGCUU_________CGCAGGCUCCGCCGGCUGAGGCGUCAGGAGAGGCGCCAGGAGAGGCGGCAGGAGAUUCGCCGGGAGAGGCAGCAGGAAAGACGCCAGCAGAGGCGUGCU
..((((................((...((((((((.((..((((((......)))))).....)).)))).))))....(((......))).)).........(((......))))))). (-34.20 = -35.58 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:21 2006