Locus 1192

Sequence ID 3L_DroMel_CAF1
Location 3,379,926 – 3,380,043
Length 117
Max. P 0.704401
window1868

overview

Window 8

Location 3,379,926 – 3,380,043
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 87.66
Mean single sequence MFE -23.98
Consensus MFE -17.89
Energy contribution -18.57
Covariance contribution 0.69
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.75
SVM decision value 0.36
SVM RNA-class probability 0.704401
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3379926 117 + 23771897
AGUUGCUCGCAACUGCAGCAACAACACCGCAGCAGCAGCAACAACAACCGCCGACAACAUCUCUGUCUGAAUUCGAAGUAUUGAAAAUAUUAAUAGAACAAACUUGUUUUGACGGAA
.((((((.((..((((.(........).))))..))))))))...................((((((....(((((....))))).........((((((....)))))))))))). ( -26.90)
>DroSec_CAF1 47267 114 + 1
AGUUGCUCGCAACUGCAGCAACAACACCGCAGC---AGCAACAACAACCGCCGACAACAUCUCUGUCUGAAUUCGAAGUAUUGAAAAUAUUAAUAGAACAAACUUGUUUUGACGGAA
.((((((.((....))))))))....((((((.---(((((...........((((.......))))....(((((....)))))..................)))))))).))).. ( -23.30)
>DroEre_CAF1 46346 94 + 1
AGUUGCUCGCAACUGCGG-----------------------CAACAACCGCCGACAACAUCUCUGUCUGAAUUCGAAGUAUUGAAAAUAUUAAUAGAACAAACUUGUUUUGACGGAA
.(((((.(((....))))-----------------------))))................((((((....(((((....))))).........((((((....)))))))))))). ( -23.00)
>DroYak_CAF1 46203 109 + 1
AGUUGCUCGCAACUGCAGCAGCAACA-----G---CAACAGCAACAACCGCCGACAACAUCUCUGUCUGAAUUCGAAGUAUUGAAAAUAUUAAUAGAACAAACUUGUUUUGACGGAA
.((((((.((....))))))))....-----(---(....))...................((((((....(((((....))))).........((((((....)))))))))))). ( -22.70)
>consensus
AGUUGCUCGCAACUGCAGCAACAACA_____G____AGCAACAACAACCGCCGACAACAUCUCUGUCUGAAUUCGAAGUAUUGAAAAUAUUAAUAGAACAAACUUGUUUUGACGGAA
.((((((.((....)))))))).......................................((((((....(((((....))))).........((((((....)))))))))))). (-17.89 = -18.57 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:41 2006