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When displaying PWM matches, the user can choose to set filters that retain only certain motifs, e.g. all matches with an E-value less than 10−4, or all matches containing the name 'STAT'STAT
The program searches for matches containing the query term in the GO field.
Alignments with less than 30 consecutive nucleotides and matches containing annotations indicating the presence of repetitive elements not detected by the Repeatmasker filter were eliminated.
An ortholog set was defined as the set of pan-reciprocal best BLASTP matches containing a single gene from each of the five genomes.
Other matches containing the GGL domain fell into either stramenophile or amoebozoa clades and had E-values as high as 9.7, demonstrating the need for alternative approaches to standard BLAST criteria.
If, instead of the reshuffled profile, a randomized proteome is used as control, then all the biases except amino acid composition are lost, resulting in overestimation of significance of sequence matches containing non-specific signals.
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One possibility is that there is heterogeneity in job destruction rates across jobs; over time, the sample of remaining matches contains a disproportionate number of jobs with low destruction rates.
Some matches contain chlorate, which can damage blood cells, impair respiration, and cause kidney disease.
In total, six of Somerset's eight home matches contained scores of 500 or over in a single innings.
Further, 59% and 47% of miR-1 and miR-124 targets that lacked any 3'-UTR seed matches contained 7mer seed matches in their coding sequences (P<10−5 and 10−15; Table 1).
These 30 matches contain orthologues of the C. elegans receptor and soluble GC genes.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com