# This file was produced by bcftools stats (1.20+htslib-1.20) and can be plotted using plot-vcfstats.
# The command line was: bcftools stats HCC1395_BL.ngscheckmate.vcf.gz
#
# Definition of sets:
# ID [2]id [3]tab-separated file names
ID 0 HCC1395_BL.ngscheckmate.vcf.gz
# SN, Summary numbers:
# number of records .. number of data rows in the VCF
# number of no-ALTs .. reference-only sites, ALT is either "." or identical to REF
# number of SNPs .. number of rows with a SNP
# number of MNPs .. number of rows with a MNP, such as CC>TT
# number of indels .. number of rows with an indel
# number of others .. number of rows with other type, for example a symbolic allele or
# a complex substitution, such as ACT>TCGA
# number of multiallelic sites .. number of rows with multiple alternate alleles
# number of multiallelic SNP sites .. number of rows with multiple alternate alleles, all SNPs
#
# Note that rows containing multiple types will be counted multiple times, in each
# counter. For example, a row with a SNP and an indel increments both the SNP and
# the indel counter.
#
# SN [2]id [3]key [4]value
SN 0 number of samples: 1
SN 0 number of records: 265
SN 0 number of no-ALTs: 228
SN 0 number of SNPs: 37
SN 0 number of MNPs: 0
SN 0 number of indels: 0
SN 0 number of others: 0
SN 0 number of multiallelic sites: 0
SN 0 number of multiallelic SNP sites: 0
# TSTV, transitions/transversions:
# TSTV [2]id [3]ts [4]tv [5]ts/tv [6]ts (1st ALT) [7]tv (1st ALT) [8]ts/tv (1st ALT)
TSTV 0 27 10 2.70 27 10 2.70
# SiS, Singleton stats:
# SiS [2]id [3]allele count [4]number of SNPs [5]number of transitions [6]number of transversions [7]number of indels [8]repeat-consistent [9]repeat-inconsistent [10]not applicable
SiS 0 1 37 27 10 0 0 0 0
# AF, Stats by non-reference allele frequency:
# AF [2]id [3]allele frequency [4]number of SNPs [5]number of transitions [6]number of transversions [7]number of indels [8]repeat-consistent [9]repeat-inconsistent [10]not applicable
AF 0 0.000000 37 27 10 0 0 0 0
# QUAL, Stats by quality
# QUAL [2]id [3]Quality [4]number of SNPs [5]number of transitions (1st ALT) [6]number of transversions (1st ALT) [7]number of indels
QUAL 0 23.0 1 1 0 0
QUAL 0 34.0 1 1 0 0
QUAL 0 225.0 35 25 10 0
# IDD, InDel distribution:
# IDD [2]id [3]length (deletions negative) [4]number of sites [5]number of genotypes [6]mean VAF
# ST, Substitution types:
# ST [2]id [3]type [4]count
ST 0 A>C 2
ST 0 A>G 7
ST 0 A>T 1
ST 0 C>A 2
ST 0 C>G 0
ST 0 C>T 7
ST 0 G>A 9
ST 0 G>C 2
ST 0 G>T 1
ST 0 T>A 0
ST 0 T>C 4
ST 0 T>G 2
# DP, Depth distribution
# DP [2]id [3]bin [4]number of genotypes [5]fraction of genotypes (%) [6]number of sites [7]fraction of sites (%)
DP 0 1 0 0.000000 3 1.132075
DP 0 2 0 0.000000 13 4.905660
DP 0 3 0 0.000000 5 1.886792
DP 0 4 0 0.000000 6 2.264151
DP 0 6 0 0.000000 4 1.509434
DP 0 7 0 0.000000 1 0.377358
DP 0 8 0 0.000000 3 1.132075
DP 0 9 0 0.000000 1 0.377358
DP 0 10 0 0.000000 5 1.886792
DP 0 12 0 0.000000 1 0.377358
DP 0 20 0 0.000000 1 0.377358
DP 0 21 0 0.000000 1 0.377358
DP 0 23 0 0.000000 1 0.377358
DP 0 25 0 0.000000 1 0.377358
DP 0 29 0 0.000000 1 0.377358
DP 0 31 0 0.000000 2 0.754717
DP 0 39 0 0.000000 1 0.377358
DP 0 42 0 0.000000 1 0.377358
DP 0 48 0 0.000000 1 0.377358
DP 0 54 0 0.000000 1 0.377358
DP 0 58 0 0.000000 1 0.377358
DP 0 60 0 0.000000 1 0.377358
DP 0 65 0 0.000000 1 0.377358
DP 0 69 0 0.000000 1 0.377358
DP 0 74 0 0.000000 1 0.377358
DP 0 77 0 0.000000 1 0.377358
DP 0 78 0 0.000000 1 0.377358
DP 0 84 0 0.000000 1 0.377358
DP 0 85 0 0.000000 1 0.377358
DP 0 89 0 0.000000 1 0.377358
DP 0 90 0 0.000000 2 0.754717
DP 0 92 0 0.000000 1 0.377358
DP 0 95 0 0.000000 1 0.377358
DP 0 97 0 0.000000 2 0.754717
DP 0 99 0 0.000000 1 0.377358
DP 0 100 0 0.000000 1 0.377358
DP 0 101 0 0.000000 1 0.377358
DP 0 103 0 0.000000 2 0.754717
DP 0 105 0 0.000000 1 0.377358
DP 0 108 0 0.000000 1 0.377358
DP 0 109 0 0.000000 1 0.377358
DP 0 110 0 0.000000 1 0.377358
DP 0 111 0 0.000000 1 0.377358
DP 0 112 0 0.000000 1 0.377358
DP 0 114 0 0.000000 1 0.377358
DP 0 116 0 0.000000 3 1.132075
DP 0 117 0 0.000000 1 0.377358
DP 0 118 0 0.000000 1 0.377358
DP 0 121 0 0.000000 1 0.377358
DP 0 122 0 0.000000 3 1.132075
DP 0 124 0 0.000000 1 0.377358
DP 0 125 0 0.000000 1 0.377358
DP 0 126 0 0.000000 3 1.132075
DP 0 128 0 0.000000 1 0.377358
DP 0 129 0 0.000000 2 0.754717
DP 0 130 0 0.000000 1 0.377358
DP 0 132 0 0.000000 1 0.377358
DP 0 134 0 0.000000 3 1.132075
DP 0 135 0 0.000000 1 0.377358
DP 0 136 0 0.000000 2 0.754717
DP 0 137 0 0.000000 2 0.754717
DP 0 138 0 0.000000 1 0.377358
DP 0 140 0 0.000000 2 0.754717
DP 0 143 0 0.000000 1 0.377358
DP 0 145 0 0.000000 2 0.754717
DP 0 146 0 0.000000 1 0.377358
DP 0 147 0 0.000000 1 0.377358
DP 0 148 0 0.000000 2 0.754717
DP 0 149 0 0.000000 2 0.754717
DP 0 150 0 0.000000 1 0.377358
DP 0 152 0 0.000000 1 0.377358
DP 0 153 0 0.000000 1 0.377358
DP 0 155 0 0.000000 1 0.377358
DP 0 157 0 0.000000 1 0.377358
DP 0 158 0 0.000000 2 0.754717
DP 0 160 0 0.000000 2 0.754717
DP 0 161 0 0.000000 1 0.377358
DP 0 162 0 0.000000 1 0.377358
DP 0 163 0 0.000000 2 0.754717
DP 0 164 0 0.000000 1 0.377358
DP 0 165 0 0.000000 1 0.377358
DP 0 166 0 0.000000 3 1.132075
DP 0 168 0 0.000000 1 0.377358
DP 0 170 0 0.000000 1 0.377358
DP 0 171 0 0.000000 1 0.377358
DP 0 172 0 0.000000 3 1.132075
DP 0 173 0 0.000000 1 0.377358
DP 0 174 0 0.000000 1 0.377358
DP 0 175 0 0.000000 2 0.754717
DP 0 176 0 0.000000 4 1.509434
DP 0 179 0 0.000000 1 0.377358
DP 0 181 0 0.000000 3 1.132075
DP 0 185 0 0.000000 1 0.377358
DP 0 188 0 0.000000 2 0.754717
DP 0 189 0 0.000000 2 0.754717
DP 0 190 0 0.000000 3 1.132075
DP 0 192 0 0.000000 1 0.377358
DP 0 194 0 0.000000 2 0.754717
DP 0 196 0 0.000000 1 0.377358
DP 0 197 0 0.000000 3 1.132075
DP 0 198 0 0.000000 1 0.377358
DP 0 200 0 0.000000 3 1.132075
DP 0 201 0 0.000000 2 0.754717
DP 0 204 0 0.000000 1 0.377358
DP 0 205 0 0.000000 2 0.754717
DP 0 207 0 0.000000 1 0.377358
DP 0 208 0 0.000000 1 0.377358
DP 0 209 0 0.000000 1 0.377358
DP 0 210 0 0.000000 2 0.754717
DP 0 211 0 0.000000 1 0.377358
DP 0 213 0 0.000000 2 0.754717
DP 0 214 0 0.000000 1 0.377358
DP 0 215 0 0.000000 1 0.377358
DP 0 216 0 0.000000 1 0.377358
DP 0 219 0 0.000000 1 0.377358
DP 0 220 0 0.000000 1 0.377358
DP 0 222 0 0.000000 2 0.754717
DP 0 224 0 0.000000 1 0.377358
DP 0 227 0 0.000000 2 0.754717
DP 0 229 0 0.000000 1 0.377358
DP 0 230 0 0.000000 1 0.377358
DP 0 231 0 0.000000 2 0.754717
DP 0 232 0 0.000000 1 0.377358
DP 0 233 0 0.000000 1 0.377358
DP 0 234 0 0.000000 2 0.754717
DP 0 236 0 0.000000 2 0.754717
DP 0 237 0 0.000000 1 0.377358
DP 0 239 0 0.000000 1 0.377358
DP 0 240 0 0.000000 1 0.377358
DP 0 241 0 0.000000 1 0.377358
DP 0 242 0 0.000000 2 0.754717
DP 0 246 0 0.000000 1 0.377358
DP 0 247 0 0.000000 1 0.377358
DP 0 249 0 0.000000 1 0.377358
DP 0 250 0 0.000000 2 0.754717
DP 0 251 0 0.000000 1 0.377358
DP 0 253 0 0.000000 2 0.754717
DP 0 254 0 0.000000 2 0.754717
DP 0 255 0 0.000000 3 1.132075
DP 0 256 0 0.000000 1 0.377358
DP 0 259 0 0.000000 2 0.754717
DP 0 260 0 0.000000 1 0.377358
DP 0 263 0 0.000000 2 0.754717
DP 0 265 0 0.000000 1 0.377358
DP 0 266 0 0.000000 1 0.377358
DP 0 270 0 0.000000 1 0.377358
DP 0 271 0 0.000000 1 0.377358
DP 0 273 0 0.000000 1 0.377358
DP 0 274 0 0.000000 1 0.377358
DP 0 275 0 0.000000 2 0.754717
DP 0 276 0 0.000000 1 0.377358
DP 0 277 0 0.000000 1 0.377358
DP 0 279 0 0.000000 1 0.377358
DP 0 281 0 0.000000 2 0.754717
DP 0 282 0 0.000000 3 1.132075
DP 0 286 0 0.000000 1 0.377358
DP 0 288 0 0.000000 1 0.377358
DP 0 289 0 0.000000 1 0.377358
DP 0 294 0 0.000000 2 0.754717
DP 0 297 0 0.000000 1 0.377358
DP 0 298 0 0.000000 1 0.377358
DP 0 299 0 0.000000 1 0.377358
DP 0 300 0 0.000000 1 0.377358
DP 0 304 0 0.000000 1 0.377358
DP 0 314 0 0.000000 1 0.377358
DP 0 316 0 0.000000 1 0.377358
DP 0 323 0 0.000000 1 0.377358
DP 0 335 0 0.000000 1 0.377358
DP 0 344 0 0.000000 1 0.377358
DP 0 373 0 0.000000 1 0.377358