Nucleotide misincorporation patterns observed on extracts CA1 and CA2. The frequencies of all possible mismatches and indels observed between the horse genome and the reads are reported in grey as a function of the position on sequencing reads, except for C→T, G→A, insertions, and deletions that are reported in blue, red, pink, and green respectively. Only the first 25 nucleotides sequenced are considered. Left: CA1 extract. Right: CA2 extract. Template preparation procedures for tSMS sequencing are reported on the left hand side of the graphs. All graphs correspond to the analyses of horse reads (80°C, 95°C, and 80°C + Spiking) except for the ones labelled 80°C olig. that refer to the analysis of reads mapping against the 30 oligonucleotides used for spiking.