Locus 8237

Sequence ID 3R_DroMel_CAF1
Location 22,067,441 – 22,067,557
Length 116
Max. P 0.612866
window13282

overview

Window 2

Location 22,067,441 – 22,067,557
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.50
Mean single sequence MFE -25.94
Consensus MFE -17.68
Energy contribution -19.44
Covariance contribution 1.76
Combinations/Pair 1.19
Mean z-score -1.84
Structure conservation index 0.68
SVM decision value 0.16
SVM RNA-class probability 0.612866
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22067441 116 + 27905053
AUGGAAGUGGCAACAAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAAGCGGCUCCAUUUGAAACAAAGAGAUGCGCUUUGUGUAUUAAUUCUGAAA----AGAAUUGAUAAAAUAUUGAG
((((((.((....)).))))))..((((((((((((......((((((.(....).)))))).....))))...))))))))((((((((((....----)))))))))).......... ( -33.70)
>DroSec_CAF1 59425 120 + 1
AUGGAAGUGGCAACAAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAAGCGGCUACAUUUGAAACAAAGAGCUGUGCUUUGCGUAUUCAUUUUGAAAAUAAAGAAUUGGUAAAAUAUUGAG
......((((((.(......))))))).......(((((((......((((((...((((...)))).))))))..(((((..((((.((.(....).)).))))..)))))))))))). ( -26.90)
>DroSim_CAF1 52447 120 + 1
AUGGAAGUGGCAACAAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAAGCGGCUACAUUUGAAACAAAGAGCUGUGCUUUGCGUAUUCAUUUUGAAAAUAAAGAAUUGGUAAAAUAUUGAG
......((((((.(......))))))).......(((((((......((((((...((((...)))).))))))..(((((..((((.((.(....).)).))))..)))))))))))). ( -26.90)
>DroEre_CAF1 53927 114 + 1
AUGGAAGUGGCAACAAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAGGCCAAUACAUUUGAAACAAAGGGAUGUGACUUGCAUUUUAAUUUUGAAA----AGAAUUC--AAACUAUUGAA
((((((.((....)).))))))(((.....................)))(((((..((((((.....(((((((.....)))))))..((((....----)))))))--))).))))).. ( -21.40)
>DroYak_CAF1 61878 114 + 1
AUGGAAGUGGCAACCAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAAGCGAAUACAUUUGAAACAAAGGGAUGUGACUUGCAUUCAAAUUUAACAA----UGAACUA--AAAUAAUUGAA
......((((((.........))))))...(.((((((..(((((....)))))...)))))))....((((((.....))))))........(((----(......--.....)))).. ( -20.80)
>consensus
AUGGAAGUGGCAACAAUUCCGUGCCACAAAGCUUUCAAUAUAUUCAAGCGGCUACAUUUGAAACAAAGAGAUGUGCUUUGCGUAUUAAUUUUGAAA____AGAAUUG_UAAAAUAUUGAG
......((((((.(......)))))))......((((((((......((((.(((((((.........)))))))..)))).((((((((((........))))))))))..)))))))) (-17.68 = -19.44 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:29 2006