Additional file 6 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

Additional file 6: Table S2. Polycistronic read statistics for NOD mouse. This table shows the tally of non-overlapping paired-end reads that were assembled into contigs by MetaPro through rnaSPADes and subsequently annotated into discrete genes by MetaGeneMark. This table also shows the prevalence of polycistronic reads that exist within the data. BWA was used to align the assembled paired-end reads against the genes to identify discordant alignments between the forward and reverse-end read of a pair with the same ID.  This table has seven columns: 1) the sample ID. 2) the sample description. 3) the total number of alignments is the number of alignments of a read to a gene that BWA reported. 4) The total number of pairs is the number of IDs that BWA aligned, be it forward, reverse, or both paired-end reads.  5) The paired-end disagreements column are the number of times a forward-end and reverse-end read had different alignments for each NOD mouse sample.  6) The paired-end agreements column shows the number of times a forward-read and reverse-end read aligned to the same gene.  7)  The percentage of paired-end disagreements, relative to the total number of paired-end reads in the sample. The percentage of disagreements (polycistronic reads) are at-best 0.23%, and at-worst 7.8% of assembled, non-overlapped paired-end reads in the NOD mouse samples.