Locus 2668

Sequence ID	X_DroMel_CAF1
Location	7,152,098 – 7,152,201
Length	103
Max. P	0.850898

overview

Window 8

Location	7,152,098 – 7,152,201
Length	103
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	91.98
Mean single sequence MFE	-35.42
Consensus MFE	-27.36
Energy contribution	-27.98
Covariance contribution	0.62
Combinations/Pair	1.06
Mean z-score	-1.71
Structure conservation index	0.77
SVM decision value	0.10
SVM RNA-class probability	0.584764
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7152098 103 + 22224390
UGCACACGUGUGU----------GUGCGUGUGUGUAUCUGUAUGAGCAACUGGCAGAGCCAGCGAAUUUGUAGCGCAGCCAGAAACAACAACACAACGCAACACGGCAACAGC
(((...(((((((----------((..((((.(((.((((..((.((..(((((...)))))((....))..)).))..)))).)))...)))).)))).))))))))..... ( -33.50)
>DroSec_CAF1 19838 103 + 1
UGCACACGUGUGU----------GUGCGUGUGUGUAUCUGUAUGAGCAACUGGCAGAGCCAGCGAAUUUGUAGCGCAGCCAGAAACAACAACACAGCGCAACACGGCAACAGC
(((...(((((.(----------((((((((.(((.((((..((.((..(((((...)))))((....))..)).))..)))).)))...)))).)))))))))))))..... ( -35.60)
>DroSim_CAF1 14299 103 + 1
UGCACACGUGUGU----------GUGCAUGUGUGUAUCUGUAUGAGCAACUGGCAGAGCCAGCGAAUUUGUAGCGCAGCCAGAAACAACAACACAGCGCAACACGGCAACAGC
(((...(((((.(----------((((.(((((((.((((..((.((..(((((...)))))((....))..)).))..)))).))....))))))))))))))))))..... ( -33.10)
>DroYak_CAF1 20190 113 + 1
UGCACGCGUGUGUGUGUUCGCGUGUGCAUGUGUGUAUCUGUGCGGGCAACUGGCAGAGCCAGCGAAUUUGUAGCGCAGCCAGAAACAACAACACAGCACAACACGGCAACAGC
((((((((((........)))))))))).((((....(((((..(....(((((...((..(((....))).))...)))))......)..)))))....))))(....)... ( -39.50)
>consensus
UGCACACGUGUGU__________GUGCAUGUGUGUAUCUGUAUGAGCAACUGGCAGAGCCAGCGAAUUUGUAGCGCAGCCAGAAACAACAACACAGCGCAACACGGCAACAGC
((((((((((..((((....))))..)))))))))).((((....((..(((((...)))))......(((.((((...................)))).)))..)).)))). (-27.36 = -27.98 +   0.62)

alignment

secondary structure

dotplot

Window 9

Location	7,152,098 – 7,152,201
Length	103
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	91.98
Mean single sequence MFE	-36.80
Consensus MFE	-30.40
Energy contribution	-29.39
Covariance contribution	-1.00
Combinations/Pair	1.17
Mean z-score	-1.98
Structure conservation index	0.83
SVM decision value	0.79
SVM RNA-class probability	0.850898
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7152098 103 - 22224390
GCUGUUGCCGUGUUGCGUUGUGUUGUUGUUUCUGGCUGCGCUACAAAUUCGCUGGCUCUGCCAGUUGCUCAUACAGAUACACACACGCAC----------ACACACGUGUGCA
((....((((((((((((((((((((.((..(((((.(.(((((......).)))).).)))))..))....)))...))))).))))).----------..))))).)))). ( -34.70)
>DroSec_CAF1 19838 103 - 1
GCUGUUGCCGUGUUGCGCUGUGUUGUUGUUUCUGGCUGCGCUACAAAUUCGCUGGCUCUGCCAGUUGCUCAUACAGAUACACACACGCAC----------ACACACGUGUGCA
((....)).((((....((((((.(..((..(((((.(.(((((......).)))).).)))))..)).)))))))..))))....((((----------((....)))))). ( -36.70)
>DroSim_CAF1 14299 103 - 1
GCUGUUGCCGUGUUGCGCUGUGUUGUUGUUUCUGGCUGCGCUACAAAUUCGCUGGCUCUGCCAGUUGCUCAUACAGAUACACACAUGCAC----------ACACACGUGUGCA
((....)).((((....((((((.(..((..(((((.(.(((((......).)))).).)))))..)).)))))))..))))...(((((----------((....))))))) ( -36.60)
>DroYak_CAF1 20190 113 - 1
GCUGUUGCCGUGUUGUGCUGUGUUGUUGUUUCUGGCUGCGCUACAAAUUCGCUGGCUCUGCCAGUUGCCCGCACAGAUACACACAUGCACACGCGAACACACACACGCGUGCA
.....(((.((((.(((((((((....((..(((((.(.(((((......).)))).).)))))..))..)))))).)))))))..)))((((((..........)))))).. ( -39.20)
>consensus
GCUGUUGCCGUGUUGCGCUGUGUUGUUGUUUCUGGCUGCGCUACAAAUUCGCUGGCUCUGCCAGUUGCUCAUACAGAUACACACACGCAC__________ACACACGUGUGCA
((....)).((((....((((((....((..(((((.(.(((((......).)))).).)))))..))..))))))..)))).(((((..................))))).. (-30.40 = -29.39 +  -1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:30 2006