Locus 5367

Sequence ID 3R_DroMel_CAF1
Location 14,100,439 – 14,100,579
Length 140
Max. P 0.745390
window8746 window8747

overview

Window 6

Location 14,100,439 – 14,100,539
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -20.00
Consensus MFE -17.20
Energy contribution -17.45
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.86
SVM decision value -0.00
SVM RNA-class probability 0.531879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14100439 100 - 27905053
GUAGUAAUGCAAUGAAAACAUUCAACCCGAAAUAAAGCGACAGAGUUGUUUCAAAACUUACAAUUUUGUCAAAUGUAAAUGUGACAAUUUCGCCUCGCUA
(((....)))..((((....))))...........((((((((((((((..........)))))))))))..........((((.....))))...))). ( -20.10)
>DroSec_CAF1 23146 100 - 1
GUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCAAAUGUAAAUGUGACAAUUUCGCCUCGCUA
(((....))).........................((((((((((((((.((....)).)))))))))))..........((((.....))))...))). ( -21.00)
>DroSim_CAF1 24559 100 - 1
GUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCAAAUGUAAAUGUGACAAUUUCGCCUCGCUA
(((....))).........................((((((((((((((.((....)).)))))))))))..........((((.....))))...))). ( -21.00)
>DroYak_CAF1 35844 100 - 1
GUAAUAAUGCAAUGAACACAUUCAACCCGAAAUCAAUCGACAGAGUUGUUUUAAAACUUACAAUUUUGUCAAAUGUAAAUGUGACAAUUUCGCCUCGCUA
........((..((((....))))...((((((.....(((((((((((..........)))))))))))...(((.......)))))))))....)).. ( -17.90)
>consensus
GUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCAAAUGUAAAUGUGACAAUUUCGCCUCGCUA
(((....))).........................((((((((((((((..........)))))))))))..........((((.....))))...))). (-17.20 = -17.45 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 14,100,468 – 14,100,579
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 94.29
Mean single sequence MFE -27.23
Consensus MFE -21.90
Energy contribution -21.78
Covariance contribution -0.12
Combinations/Pair 1.11
Mean z-score -2.15
Structure conservation index 0.80
SVM decision value 0.46
SVM RNA-class probability 0.745390
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14100468 111 - 27905053
GAACGGGGUAAAACUGUUACUCAACGACUUCACUGGGUGGGUAGUAAUGCAAUGAAAACAUUCAACCCGAAAUAAAGCGACAGAGUUGUUUCAAAACUUACAAUUUUGUCA
...((((........((((((...(.(((......))).)..))))))....((((....)))).)))).........(((((((((((..........))))))))))). ( -27.50)
>DroSec_CAF1 23175 111 - 1
GAACGAGGUAAAACUGUUACUCAACGACUUCACUGGGCGGGUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCA
....(((((.....((.....))...)))))..(((.(((((.(((.((.........))))).)))))...)))...(((((((((((.((....)).))))))))))). ( -27.90)
>DroSim_CAF1 24588 111 - 1
GAACGAGGUAAAACUGUUACUCAACGACUUCACUGGGCGGGUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCA
....(((((.....((.....))...)))))..(((.(((((.(((.((.........))))).)))))...)))...(((((((((((.((....)).))))))))))). ( -27.90)
>DroYak_CAF1 35873 111 - 1
GAACGAAGUAAAACUGUUACUCAACGACUUCACUGGUUGGGUAAUAAUGCAAUGAACACAUUCAACCCGAAAUCAAUCGACAGAGUUGUUUUAAAACUUACAAUUUUGUCA
...((.........(((((((((((.(......).))))))))))).((.((((....))))))...)).........(((((((((((..........))))))))))). ( -25.60)
>consensus
GAACGAGGUAAAACUGUUACUCAACGACUUCACUGGGCGGGUAGUAAUGCAAUGAACACAUACAACCCGAAAUCAAGCGACAGAGUUGUUGGAAAACUUACAAUUUUGUCA
....(((((.....((.....))...)))))......(((((...((((.........))))..))))).........(((((((((((..........))))))))))). (-21.90 = -21.78 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:02 2006