Locus 1125

Sequence ID 3R_DroMel_CAF1
Location 3,383,952 – 3,384,053
Length 101
Max. P 0.512008
window1843

overview

Window 3

Location 3,383,952 – 3,384,053
Length 101
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 82.35
Mean single sequence MFE -28.27
Consensus MFE -20.81
Energy contribution -20.70
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.512008
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3383952 101 + 27905053
----------------GUGCUUAAGGUGAUUUCUAAGAAUUGUGAGCAAUAAUA--UAGCAUACAUCUUGGCGUCGACACAGUCCAUUUUUAUGCCCGUUCUUAAAAGGGUAUGCUAGA
----------------.((((((..((...........))..))))))......--((((((((.(((((((((.((...........)).))))).........)))))))))))).. ( -20.40)
>DroSec_CAF1 12328 118 + 1
CCGAAAAUUGUUGUUCGUGCUUAAGGUGAAUUCUAAGAAUUGUGAGCAAUAAUAUGUAGCAUACAUCUUGGCGUCGAUACAGGCAAUU-UUAUACCCUUUACUAAAAGGGUAUGCUAGA
...((((((((((((((((((.((((((.((.(((...(((((.....)))))...))).)).)))))))))).))).))).))))))-))(((((((((....)))))))))...... ( -34.30)
>DroSim_CAF1 13163 119 + 1
CCGAAAAUUGUGGUUCGUGCUUAAGGUGAAUUCCAAGACUUGUGAGCAAUAAUAUGUAGCAUACAUCUUGGCGUCGAUACAGUCAGUUUUUAUACCCUUUACUAAAAGGGUAUGCUAUA
..((((((((..(((((((((.((((((...((((.....)).))((.((.....)).))...)))))))))).))).))...))))))))(((((((((....)))))))))...... ( -30.10)
>consensus
CCGAAAAUUGU_GUUCGUGCUUAAGGUGAAUUCUAAGAAUUGUGAGCAAUAAUAUGUAGCAUACAUCUUGGCGUCGAUACAGUCAAUUUUUAUACCCUUUACUAAAAGGGUAUGCUAGA
..................((....(.(((...((((((..((((.((...........)).))))))))))..)))...)...........(((((((((....))))))))))).... (-20.81 = -20.70 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:34 2006