Locus 4691

Sequence ID	3R_DroMel_CAF1
Location	12,342,376 – 12,342,515
Length	139
Max. P	0.588712

overview

Window 4

Location	12,342,376 – 12,342,475
Length	99
Sequences	3
Columns	99
Reading direction	reverse
Mean pairwise identity	97.98
Mean single sequence MFE	-31.32
Consensus MFE	-29.44
Energy contribution	-29.77
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.94
SVM decision value	0.11
SVM RNA-class probability	0.588712
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12342376 99 - 27905053
ACCUCGCCACCAGCACCACCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCCCCUUGAAAGCGAAUGAUGCAACAGCAGUUUCGGGAAUGGG
.(((((..................)))))..((((...(((((((((((....(((......)))...)))....(((....)))))))))))..)))) ( -26.97)
>DroSec_CAF1 11160 99 - 1
ACCUCGCCACCAGCAGCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCCCCUUGAAAGCGGAUGAUGCAACAGCAGUUUCGGGAAUGGG
.(((((......((....))....)))))..((((...((((((((.......((((((.((....)).))))))(((....)))))))))))..)))) ( -33.50)
>DroSim_CAF1 10279 99 - 1
ACCUCGCCACCAGCACCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCCCCUUGAAAGCGGAUGAUGCAACAGCAGUUUCGGGAAUGGG
.(((((......((....))....)))))..((((...((((((((.......((((((.((....)).))))))(((....)))))))))))..)))) ( -33.50)
>consensus
ACCUCGCCACCAGCACCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCCCCUUGAAAGCGGAUGAUGCAACAGCAGUUUCGGGAAUGGG
.(((((..................)))))..((((...((((((((.......((((((.((....)).))))))(((....)))))))))))..)))) (-29.44 = -29.77 +   0.33)

alignment

secondary structure

dotplot

Window 5

Location	12,342,416 – 12,342,515
Length	99
Sequences	3
Columns	99
Reading direction	reverse
Mean pairwise identity	98.65
Mean single sequence MFE	-20.67
Consensus MFE	-19.96
Energy contribution	-20.30
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.42
Structure conservation index	0.97
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12342416 99 - 27905053
CCCGUGUAUCGUUACCUAAACUCGGAUGCUUCAACCCUUAACCUCGCCACCAGCACCACCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCC
...(.((((((...((.....((((.((...))........(((((..................)))))...)))).....))....)))))).).... ( -17.27)
>DroSec_CAF1 11200 99 - 1
CCCGUGUAUCGUUACCUAAACUCGGAUGCUUCAACCCUUAACCUCGCCACCAGCAGCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCC
...(.((((((.........((((((((((.(.......................).)))))).))))....((((...))))....)))))).).... ( -22.60)
>DroSim_CAF1 10319 99 - 1
CCCGUGUAUCGUUACCUAAACUCGGAUGCUUCAACCCUUAACCUCGCCACCAGCACCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCC
...(.((((((.........((((((((((...........................)))))).))))....((((...))))....)))))).).... ( -22.13)
>consensus
CCCGUGUAUCGUUACCUAAACUCGGAUGCUUCAACCCUUAACCUCGCCACCAGCACCAGCAUCACGAGGAACCCGGAACCUGGAACUCGAUACUCAUCC
...(.((((((.........((((((((((...........................)))))).))))....((((...))))....)))))).).... (-19.96 = -20.30 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:35 2006