If performance in the target-change condition arose through inhibition of the introduced Gabors, performance in the both-change condition should be uniformly poor as a result of this target-flanker match.
All sequences for which both flanking regions matched the chicken genome with E-values lower than E-10 were classified as conserved sequence homologues.
This analysis led to the identification of PPAR-γ, in which mRNA 3′-UTR regions comprise the seed sequences and flanking nucleotides matching miR-27b, which is highly conserved among the human, mouse, rat and dog species (Supplementary information, Figure S3A-S3C).
SL = (# of matches) – (# of non-match blocks) + 1, where a non-match block means consecutive runs of non-matches (mismatches or gaps) flanked by matches.
There was a brightly painted wood door in one wall, flanked by matching wood shutters, and above them began the eaves of a tin roof.
p0Δ810: The plasmid p0Δ810 was created by replacing a NotI to AscI fragment that spans codons 19 to 810 of the HSV-2 ICP0 gene (bases 121,927 124, 893) with a GFP coding sequence flanked by matching NotI and AscI restriction sites.
i. p0Δ104: The plasmid p0Δ104 was created by replacing the NotI to BamHI fragment that spans codons 19 to 104 of the HSV-2 ICP0 gene (bases 124,229 124, 893) with a GFP coding sequence flanked by matching NotI and BamHI restriction sites.
The PM target forms a duplex with the immobilized CP in which both the 5′ and 3′ abasic sites are flanked by matched bases, with the 3′ poly(T8) sequence of CP forming a sticky end.
If the TIRs and TSDs of a putative element could not be determined, 1 kb of DNA sequences flanking the TARGeT matched region were retrieved to serve as a representative of the element.
The second point to be stressed in L. maculans is the high percentage of recovery of flanking sequences with matches in the fungal genome (around 80%) as was also observed for M. oryzae (Meng et al. 2007), whereas in plants, the frequencies usually amount to 60 65% [ e.g. Thole et al. (2010)].
