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Therefore all identified ZFs/ZFPs subsequently were checked for overlaps with other protein motifs by manual inspection with Pfam and SMART [ 42] search tools and by BLAST search [ 43].
Genomic coordinates for all the nondubious ORFs in the SGD data set were extracted and checked for overlaps with the positions of the intermarker intervals in the recombination data set (Mancera et al. 2008).
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To identify candidate miRNAs involved in TE specification, we identified all miRNAs with SNR scores >0.5 or <0.5 from our in vitro and in vivo datasets, and checked for overlapping miRNAs between the sets.
These dates defined the partnership intervals, which were then checked for overlap across all three potential partnership pairs (partners 1 and 2, 1 and 3, and 2 and 3).
The BLAT results for the BRENDA dataset were checked for overlap with the cluster dataset.
We checked for overlap between factors by estimating inter-scale correlations using Pearsons' correlation coefficient.
The RNA annotations from the pipeline were checked for overlap with the small RNA library.
The reviews were checked for overlap, since one study may be included in more than one systematic review.
The initial statements were reviewed and refined over three iterations by two researchers and checked for overlap with other statements and against the verbatim data.
We then checked for overlap between this list and genes containing SNVs that are both functional (based on the "snpEff" software; see above) and are mutated in at least one tumour sample.
The seed regions were checked for overlap with other known miRNA and miRNA* sequences and the targetscanS algorithm was used to predict miRNA*-mRNA pairs, if the seed sequence was previously unreported.
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