Locus 6293

Sequence ID	3L_DroMel_CAF1
Location	16,757,329 – 16,757,428
Length	99
Max. P	0.999703

overview

Window 3

Location	16,757,329 – 16,757,428
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	94.54
Mean single sequence MFE	-29.64
Consensus MFE	-25.78
Energy contribution	-26.10
Covariance contribution	0.32
Combinations/Pair	1.09
Mean z-score	-3.08
Structure conservation index	0.87
SVM decision value	3.92
SVM RNA-class probability	0.999703
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16757329 99 + 23771897
UGGAUCAUGUCCAUGGGUUCGCAAUCGAGACAUCUUUCAUUUGUCAGAUUUCAAAGAAUUUGAAAUUCUCAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((...((..((((((((.........)))).((((((((.....))))))))....))))..))...)))).)))))).))))) ( -30.00)
>DroSec_CAF1 6532 99 + 1
UGGAUCAUGUCCAUGGGUUCGCAAUCGAGACAUCUUUCAUUUGUCAGAUUUCAAAGAAUUUAAAAUUCUCAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((..(((((((..((((.........)))).))))(((((((((.....)))))..)))))))....)))).)))))).))))) ( -29.20)
>DroSim_CAF1 6822 99 + 1
UGGAUCAUGUCCAUGGGUUCGCAAUUGAGACAUCUUUCAUUUGUCAGAUUUCAAAGAAUUUAAAAUUCUCAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((..(((......((((.........)))).....(((((((((.....)))))..)))))))....)))).)))))).))))) ( -27.80)
>DroEre_CAF1 6796 98 + 1
UGGAUCAUGUCCAUGGGUUCGCAAUCGAGACAUCUAUCAUUUGUCAGAUUUCAAACAAU-UGAAGCUCUUAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((...((.(((..((((.........)))).)))(((((....)-))))((((.....))))))...)))).)))))).))))) ( -31.00)
>DroYak_CAF1 6528 98 + 1
UGGAUCAUGUCCAUGGGUUCGCAAUCGAGACAUCUUUCAAUUGUCAGAUUUCAAGCAAU-GGAAACUCUUAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((..(((((((..((((.........)))).))))((((.....-(....).....)))))))....)))).)))))).))))) ( -30.20)
>consensus
UGGAUCAUGUCCAUGGGUUCGCAAUCGAGACAUCUUUCAUUUGUCAGAUUUCAAAGAAUUUGAAAUUCUCAUUGAGCGCUCUUCCGCUGGACAAGAUUC
.(((((.((((((((((..(((((((..((((.........)))).))))(((((((((.....)))))..)))))))....)))).)))))).))))) (-25.78 = -26.10 +   0.32)

alignment

secondary structure

dotplot

Window 4

Location	16,757,329 – 16,757,428
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	94.54
Mean single sequence MFE	-25.64
Consensus MFE	-20.92
Energy contribution	-21.52
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-1.82
Structure conservation index	0.82
SVM decision value	0.94
SVM RNA-class probability	0.885689
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16757329 99 - 23771897
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUGAGAAUUUCAAAUUCUUUGAAAUCUGACAAAUGAAAGAUGUCUCGAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((....(((.((....(((.((((((.....)))))))))((((.........))))..)).)))....)).)))))).))).). ( -24.80)
>DroSec_CAF1 6532 99 - 1
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUGAGAAUUUUAAAUUCUUUGAAAUCUGACAAAUGAAAGAUGUCUCGAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((.....((((((..((((((.....)))))))))((((.((((.........))))..)))))))...)).)))))).))).). ( -24.60)
>DroSim_CAF1 6822 99 - 1
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUGAGAAUUUUAAAUUCUUUGAAAUCUGACAAAUGAAAGAUGUCUCAAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((.....(((....((((((((((....((((((........)))).))))))).)))))...)))...)).)))))).))).). ( -23.40)
>DroEre_CAF1 6796 98 - 1
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUAAGAGCUUCA-AUUGUUUGAAAUCUGACAAAUGAUAGAUGUCUCGAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((..(((.((((.....))))))).-...(((((.((((.((((.........))))..)))).))))))).)))))).))).). ( -29.60)
>DroYak_CAF1 6528 98 - 1
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUAAGAGUUUCC-AUUGCUUGAAAUCUGACAAUUGAAAGAUGUCUCGAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((((....((((.....))))))))-.((((....((((.((((.((....))))))..)))))))).....)))))).))).). ( -25.80)
>consensus
GAAUCUUGUCCAGCGGAAGAGCGCUCAAUGAGAAUUUCAAAUUCUUUGAAAUCUGACAAAUGAAAGAUGUCUCGAUUGCGAACCCAUGGACAUGAUCCA
(.(((.((((((..((.....(((....(((((..(((((.....)))))((((..(....)..)))).)))))...)))...)).)))))).))).). (-20.92 = -21.52 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:54 2006