Locus 4493

Sequence ID 3L_DroMel_CAF1
Location 12,979,731 – 12,979,851
Length 120
Max. P 0.937971
window7017

overview

Window 7

Location 12,979,731 – 12,979,851
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -41.14
Consensus MFE -37.14
Energy contribution -37.26
Covariance contribution 0.12
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.90
SVM decision value 1.29
SVM RNA-class probability 0.937971
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12979731 120 + 23771897
GACCAAAGCGGCUCCUGCAGUGCCAAUGGCAAUAUAAAUGGCAAUGUUGAAAGCGGAGCACUGGGCCCGCAUCUAAGCGCAUUAAGUAUGCGCCGCGUGCGCCAAUUAGAUUGAGUCAGC
((((((.((((..((..(((((((..(..((((((........))))))..)...).)))))))).)))).(((((((((((.....)))))).((....))...)))))))).)))... ( -39.00)
>DroSec_CAF1 96990 120 + 1
GACCAAAGCGGCUCCUGCAGCGCCAAUGGCAAUAUAAAUGGCAAUGUUGAAAGCGGAGCACUGGGCCCGCAUCUAAGCGCAUUAAGUAUGCGCAGCGUGCGCCAAUUAGAUUGAGUCAGC
((((((.((.((....)).))(((...)))....(((.((((.(((((....((((.((.....))))))......((((((.....)))))))))))..)))).)))..))).)))... ( -41.60)
>DroSim_CAF1 106724 120 + 1
GACCAAACCGGCUCCUGCAGCGCCAAUGGCAAUAUAAAUGGCAAUGUUGAAAGCGGAGCACUGGGCCCGCAUCUAAGCGCAUUAAGUAUGCGCAGCGUGCGCCAAUUAGAUUGAGUCAGC
.........(((((...(...(((...)))....(((.((((.(((((....((((.((.....))))))......((((((.....)))))))))))..)))).))))...)))))... ( -39.40)
>DroEre_CAF1 102925 120 + 1
GACCAAAGCGGCUCCUGCAGCGCCAAUGGCAAUAUAAAUGGCAAUGUUGAAAGCGGUGCGCUGGGCCCGCAUCUAAGCGCAUUAAGUAUGCGCCGCGUGCACCAAUUAGAUUGAGUCAGC
((((((.((((..((.((.(((((..(..((((((........))))))..)..))))))).))..)))).(((((((((((.....)))))).(....).....)))))))).)))... ( -42.90)
>DroYak_CAF1 101149 120 + 1
GACCAAAGCGGCUCCUGCAGCGCCAAUGGCAAUAUAAAUGGCAAUGCUGAAAGCGGAGCGCAGGGCCCGCAUUUAAGCGCAUUAAGUAUGCGCCGCGUGCGCCAAUUAGAUUGAGUCAGC
((((((.((.((....)).))(((...)))....(((.((((.((((((((.((((.((.....)))))).)))).((((((.....)))))).))))..)))).)))..))).)))... ( -42.80)
>consensus
GACCAAAGCGGCUCCUGCAGCGCCAAUGGCAAUAUAAAUGGCAAUGUUGAAAGCGGAGCACUGGGCCCGCAUCUAAGCGCAUUAAGUAUGCGCCGCGUGCGCCAAUUAGAUUGAGUCAGC
((((((.((.((....)).))(((...)))....(((.((((.((((.....((((.((.....))))))......((((((.....)))))).))))..)))).)))..))).)))... (-37.14 = -37.26 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:52 2006