+where the second column gives the string representation of the FLAG field.
+
+.SH VCF FORMAT
+
+The Variant Call Format (VCF) is a TAB-delimited format with each data line consists of the following fields:
+.TS
+center box;
+cb | cb | cb
+n | l | l .
+Col Field Description
+_
+1 CHROM CHROMosome name
+2 POS the left-most POSition of the variant
+3 ID unique variant IDentifier
+4 REF the REFerence allele
+5 ALT the ALTernate allele(s), separated by comma
+6 QUAL variant/reference QUALity
+7 FILTER FILTers applied
+8 INFO INFOrmation related to the variant, separated by semi-colon
+9 FORMAT FORMAT of the genotype fields, separated by colon (optional)
+10+ SAMPLE SAMPLE genotypes and per-sample information (optional)
+.TE
+
+.PP
+The following table gives the
+.B INFO
+tags used by samtools and bcftools.
+
+.TS
+center box;
+cb | cb | cb
+l | l | l .
+Tag Format Description
+_
+AF1 double Max-likelihood estimate of the site allele frequency (AF) of the first ALT allele
+DP int Raw read depth (without quality filtering)
+DP4 int[4] # high-quality reference forward bases, ref reverse, alternate for and alt rev bases
+FQ int Consensus quality. Positive: sample genotypes different; negative: otherwise
+MQ int Root-Mean-Square mapping quality of covering reads
+PC2 int[2] Phred probability of AF in group1 samples being larger (,smaller) than in group2
+PCHI2 double Posterior weighted chi^2 P-value between group1 and group2 samples
+PV4 double[4] P-value for strand bias, baseQ bias, mapQ bias and tail distance bias
+QCHI2 int Phred-scaled PCHI2
+RP int # permutations yielding a smaller PCHI2
+CLR int Phred log ratio of genotype likelihoods with and without the trio/pair constraint
+UGT string Most probable genotype configuration without the trio constraint
+CGT string Most probable configuration with the trio constraint
+VDB float Tests variant positions within reads. Intended for filtering RNA-seq artifacts around splice sites
+RPB float Mann-Whitney rank-sum test for tail distance bias
+HWE float Hardy-Weinberg equilibrium test, Wigginton et al., PMID: 15789306
+.TE
+