Sentence examples for representatives were aligned from inspiring English sources
Representative sPLD-like-A homologs were further analysed for potential characteristics (Table 3) and some clade representatives were aligned (Figure 5).
For each of Bormi1 and Bormi2, which we had identified as recombinant strains in our GARD and PHI test analysis, two representative sequences were aligned with two representatives from each of the parental strains.
Reference SUP05 and Arctic96BD-19 sequences from different environments and symbionts and cluster representative sequences were aligned using the SILVA aligner tool (http://www.arb-silva.de/aligner/) and imported into an in-house ARB database for SUP05.
Annotations showing independent kDNA integrations in LINE-1 were analyzed, and representative sequences were aligned to obtain probes targeting the hotspots of DNA integration (Figure S1).
Representative sequences were aligned using the software of Clustal X [43], and their phylogenetic relationship was analyzed using the software MEGA 4.0 with neighboring-joining method and the same parameters for the genetic distance calculation [42].
Sequences from representative species were aligned using MAFFT [ 42].
The representative sequences were aligned using MAFFT (Katoh et al. 2005).
To facilitate the presentation of sequence elements that characterize each group of proteins, the sequences of several representative proteins were aligned.
To compare plastome organization within cupressophytes, genomes from 8 representative species were aligned using Mauve version 2.3.1 (Darling et al. 2010).
All genomes of the ST239 representative strains were aligned using the progressive Mauve method with default parameters, and core genome SNPs were retrieved from aligned regions excluding gapped ambiguous columns.
For the data analysis pseudoreads were clustered into operational taxonomic units (OTUs) per sample at 97 % similarity and OTU-representative sequences were aligned against the aligned Greengenes core set (13_8 release) [ 68, 69].
