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At each site she visited, she extracted a motif from a facade, sign or interior detail.
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We extracted a conserved core Rab motif from the constructed alignment, partitioned it into sub-alignments according to the different initial sequence groups and constructed an HMM for each one.
Then, we extracted all motifs with a p seq score <10−8 with respect to this i.i.d.i.d
The control set was extracted from CTCF-A motifs with the lowest (the bottom 5%%) reads coverage from the ChIP-seq experiments ("****" represents P -value < 1e-5).
With MotViz, the user can extract a complete list of sequence motifs from loaded 3D structures, annotate the motifs structurally and analyze their physiochemical properties.
The coordinates of these windows are used to extract a corresponding set of t motifs from the spatial map of cluster labels obtained from k-means.
These motifs can be generated from the MEME motif discovery algorithm, extracted from an existing motif database or created by hand using a simple text format.
Second, in considering the local conservation of kernel structure in protein folds, motif information was extracted, including functional motifs and statistical motifs.
For example, we extracted the motif DNNNNDRYW [2578, 4202]RNNGVHVY, from the same 36 LTRs of A. thaliana mentioned above.
Initially we create all the aggregate neighbors for each extracted structured motif ℳ MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBamrtHrhAL1wy0L2yHvtyaeHbnfgDOvwBHrxAJfwnaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaWaaeGaeaaakeaaimaacqWFZestaaa@3790@ (lines 3 7).
Then it computes, for each extracted frequent motif, its support and weighted support (π w ) in the shuffled set.
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CEO of Professional Science Editing for Scientists @ prosciediting.com