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The image patch can be independently trained from every annotated point, and the trained patch is cross-correlated with an image region containing the annotated point.
Because all the annotated binding sites for each TF are on the same strand of DNA, we first use only the strand containing the annotated sites.
At the end of the augur pipeline, JSON files are exported containing the annotated phylogenetic tree, sequence data and frequency trajectories.
The first five plots display expression profiles in the regions containing the annotated and experimentally verified sRNAs GlmZ, CyaR, MicF, McaS, and RyhB.
A 15-residue long region from the alignment containing the annotated BH3 domains was selected using trimAl 1.3, and a HMM model was built for the region using HMMER v1.8.5.
Transcript LmjF.36.T3620, containing the annotated LmjF36.3620 gene and coding for a hypothetical protein, was also found among the most abundant transcripts in L. major promastigotes [ 42] and metacyclics forms [ 43]. a GeneDB identification code.
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In the case of Vibrio cholera, 21 of 48 pseudogenes cloned and sequenced by the Harvard Institute of Proteomics did not contain the annotated point mutation or frame shift and appeared to produce full-length proteins [16].
The genome of XccA306 contains the annotated gene XAC0395 between the two, which is a hypothetical protein.
Subclade A (blue) contains the annotated human Dscam sequence and single sequences from dog, fugu and zebrafish.
Clade I (magenta) contains the annotated insect Dscam exon variants and also an unannotated sequence from the nematode, while clade II (cyan) contains the vertebrate sequences.
Subclade B (green) contains the annotated human and rodent Dscam-like sequences, a second sequence from both frog and dog, and the sole sequence from tetraodon.
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