Locus 339

Sequence ID	X_DroMel_CAF1
Location	1,061,404 – 1,061,499
Length	95
Max. P	0.911723

overview

Window 6

Location	1,061,404 – 1,061,499
Length	95
Sequences	4
Columns	116
Reading direction	reverse
Mean pairwise identity	84.83
Mean single sequence MFE	-41.35
Consensus MFE	-30.51
Energy contribution	-32.07
Covariance contribution	1.56
Combinations/Pair	1.06
Mean z-score	-2.18
Structure conservation index	0.74
SVM decision value	1.08
SVM RNA-class probability	0.911723
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1061404 95 - 22224390
GGUCCAGCUCACGAAUGGGUUGCCAAAGGUCUUCCCGCAGCGGAAGCUGUGACUCAAAGCGAUUGGAAUGCUGCU---------------------GCUGGUGCUGUUGGAAGCCA
((..(((((((....)))))))))...((.(((((((((((....))))))......(((.((..(.........---------------------.)..)))))...))))))). ( -33.80)
>DroSec_CAF1 10440 95 - 1
GGUCCAGCUCACGAAUGGGUUGCCAAAGGUCUUCCCGCAGCGGAAGCUGUGUCUCAAAGCGAUUGGGAUGCUGCU---------------------GCUGCUGCUGUUGGAGGCCA
((..(((((((....)))))))))...(((((((..(((((((.(((.(((((((((.....))))))))).)))---------------------.)))))))....))))))). ( -44.50)
>DroSim_CAF1 11375 95 - 1
GGUCCAGCUCACGAAUGGGUUGCCAAAGGUCUUCCCGCAGCGGAAGCUGUGUCUCAAAGCGAUUGGGAUGCUGCU---------------------GCUGCUGCUGUUGGAGGCCA
((..(((((((....)))))))))...(((((((..(((((((.(((.(((((((((.....))))))))).)))---------------------.)))))))....))))))). ( -44.50)
>DroYak_CAF1 12758 116 - 1
GGUCCAGUUCACGAAUAGGUUGCCAAAGGUCUUCCCGCAGCGGUAGCUGUUGCUCAAAGCGAUUGUGAUGCUGCUGUGGCCGGAACUGCUCAUGUUGCUGCUGCUGUUGGAAACCA
(((((.(((....))).))..)))...(((.((((.(((((((((((.(((((.....))))).((((.((..(((....)))....))))))...))))))))))).))))))). ( -42.60)
>consensus
GGUCCAGCUCACGAAUGGGUUGCCAAAGGUCUUCCCGCAGCGGAAGCUGUGUCUCAAAGCGAUUGGGAUGCUGCU_____________________GCUGCUGCUGUUGGAAGCCA
((..(((((((....)))))))))...((.(((((.(((((((.(((.(((((((((.....))))))))).))).........................))))))).))))))). (-30.51 = -32.07 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:07 2006