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A list of sequence accessions could be found in Additional file 9.
Table 1 provides a list of sequence patterns whose occurrences in prokaryotic genomes were investigated in this work.
When storing a list of sequence identifiers with each edge, exact conversion between the two representations is possible.
Amplified library constructs were directly sequenced and a list of sequence transcripts and counts was generated using an RNAseq analysis pipeline to determine differential gene expression.
A list of sequence identifiers, species names and database identifiers is given in Supplementary Table S1; sequences are available in the Supplementary Datasets S1 S3.
Across all available short read aligners this leads to a multitude of different ways of doing the same task each time: take a list of sequence reads and return a description of how they map to a reference genome.
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As usual, each sequence of the SCOP profile was first processed by the dissectHMMER workflow (see section " The HMMER score dissection framework: dissectHMMER webserver") to generate a list of sequence-to-domain hits and their associated error-adjusted domain coverage score measures (i.e. coverageratio and coveragefold ‐ critical E ‐ value).
A list of sequence-specific primers for quantitative PCR analysis of CYP4 transcript expression, a depiction of the transcripts recognized by primers targeted to a subset of CYP4BL cDNA sequences, and additional details on qRT-PCR conditions and statistical analysis can be found in Additional files 4, 5 and 6.
2.2 Sample instances Below is a list of sequences representative of tRNA genes.
We obtained a list of sequences that are present between the two matching terminal 23 bp.
A list of sequences used in this study is provided in Table 1.
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