Tab-delimited SNP calls with the following columns: Chrom chromosome name Position position (1-based) Ref reference allele at this position Cons Consensus genotype of sample in IUPAC format. Reads1 reads supporting reference allele Reads2 reads supporting variant allele VarFreq frequency of variant allele by read count Strands1 strands on which reference allele was observed Strands2 strands on which variant allele was observed Qual1 average base quality of reference-supporting read bases Qual2 average base quality of variant-supporting read bases Pvalue Significance of variant read count vs. expected baseline error MapQual1 Average map quality of ref reads (only useful if in pileup) MapQual2 Average map quality of var reads (only useful if in pileup) Reads1Plus Number of reference-supporting reads on + strand Reads1Minus Number of reference-supporting reads on - strand Reads2Plus Number of variant-supporting reads on + strand Reads2Minus Number of variant-supporting reads on - strand VarAllele Most frequent non-reference allele observed