diff --git a/.gitignore b/.gitignore index 03f12f7..ba64d08 100644 --- a/.gitignore +++ b/.gitignore @@ -16,3 +16,5 @@ umiVar_personalized /Test/chr10.fa /Test/chr10.fa.fai /Test/postFilter01 +/Test/test_output/ +/Test/filter_variants.log diff --git a/README.md b/README.md index 10f4475..90149ff 100644 --- a/README.md +++ b/README.md @@ -132,3 +132,31 @@ $umiVar_R_binary="[PATH_TO_R]/RScript" $umiVar_samtools_binary="[PATH_TO_SAMTOOLS]/samtools" ``` +### Alternative MRD calculation + +The Script `calculateMRD.py` provides an alternative approach to calculate the minimum residual disease based on the background noise. For that it uses pileup files created by `umiVar` and calculates the MRD with a Fisher's Exact Test: +``` +usage: calculateMRD.py [-h] [--max_af MAX_AF] [--keep_gonosomes] [--blacklist BLACKLIST] + [--remove_off_target] [--keep_indels] folder panel output variants + +Script to calculate MRD based on background noise. + +positional arguments: + folder umiVar folder containing dedup TSV files. + panel VCF containing the cfDNA panel.(commas seperated if multiple) + output Output TSV containing MRD value. + variants Output TSV containing read counts and p-values for each monitoring variants. + +optional arguments: + -h, --help show this help message and exit + --max_af MAX_AF Maximum allele frequency for variants to include in the computation. (>1 to disable) + --keep_gonosomes Do not remove gonosomes + --blacklist BLACKLIST + VCF of variants which should be excluded for the background error rate + --remove_off_target Remove tumor off-target variants + --keep_indels Do not remove InDels. + +``` + + + diff --git a/Test/Makefile b/Test/Makefile index 0bd3840..60cae87 100644 --- a/Test/Makefile +++ b/Test/Makefile @@ -1,7 +1,7 @@ all: clean CFDNA_01 CFDNA_02 select_monitoring post_filtering ##Test case for CI -ci: clean download_test_reference CFDNA_02 select_monitoring post_filtering +ci: clean download_test_reference CFDNA_02 select_monitoring post_filtering mrd_calculation_01 clean: rm -rf umiVar_CFDNA_01 umiVar_CFDNA_02 select_monitoring_01 select_monitoring_02 select_monitoring_03 postFilter01 @@ -93,4 +93,21 @@ check_post_filter_01: diff -u CFDNA05_01.GSvar.out postFilter01/CFDNA05_01.GSvar diff -u CFDNA06_01.GSvar.out postFilter01/CFDNA06_01.GSvar +mrd_calculation_01: run_mrd_calculation_01 check_mrd_calculation_01 + +run_mrd_calculation_01: + mkdir -p test_output + mkdir -p test_output/mrdCalculation01 + python3 ../calculateMRD.py data_input/mrdCalculation01 data_input/mrdCalculation01/cfdna_panel.vcf test_output/mrdCalculation01/mrdCalculation01_bg.mrd \ + test_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv + python3 ../calculateMRD.py data_input/mrdCalculation01 data_input/mrdCalculation01/cfdna_panel.vcf test_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd \ + test_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv --max_af 1.0 --keep_gonosomes --keep_indels + +check_mrd_calculation_01: + diff -u data_output/mrdCalculation01/mrdCalculation01_bg.mrd test_output/mrdCalculation01/mrdCalculation01_bg.mrd + diff -u data_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv test_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv + diff -u data_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd test_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd + diff -u data_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv test_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv + + diff --git a/Test/data_input/mrdCalculation01/cfdna_panel.vcf b/Test/data_input/mrdCalculation01/cfdna_panel.vcf new file mode 100644 index 0000000..755c5c8 --- /dev/null +++ b/Test/data_input/mrdCalculation01/cfdna_panel.vcf @@ -0,0 +1,36 @@ +##fileformat=VCFv4.2 +##GENOME_BUILD=GRCh38 +##CREATION_DATE=2023-08-02 +##INFO= +##FORMAT= +#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SAMPLE +chr1 26300987 ID N N . . . GT ./. +chr1 114713909 M G T . . gene_change=NRAS_Q61K GT ./. +chr1 114713915 M C T . . gene_change=NRAS_A59T GT ./. +chr2 24918669 ID N N . . . GT ./. +chr2 68655336 ID N N . . . GT ./. +chr3 179218303 M G A . . gene_change=PIK3CA_E545K GT ./. +chr7 55174771 M AGGAATTAAGAGAAGC A . . gene_change=EGFR_delE746-A750 GT ./. +chr7 55181316 M GG GGCCAGCGTGG . . gene_change=EGFR_V769-D770insASV GT ./. +chr7 55181378 M C T . . gene_change=EGFR_T790M GT ./. +chr7 55191822 M T G . . gene_change=EGFR_L858R GT ./. +chr7 100577850 ID N N . . . GT ./. +chr7 150742412 ID N N . . . GT ./. +chr8 106770107 ID N N . . . GT ./. +chr8 143984818 ID N N . . . GT ./. +chr9 128261226 ID N N . . . GT ./. +chr9 128424504 ID N N . . . GT ./. +chr10 17644392 ID N N . . . GT ./. +chr10 71362188 ID N N . . . GT ./. +chr11 47324594 ID N N . . . GT ./. +chr12 25245350 M C T . . gene_change=KRAS_G12D GT ./. +chr14 74286575 ID N N . . . GT ./. +chr16 66913480 ID N N . . . GT ./. +chr17 7513364 ID N N . . . GT ./. +chr17 7847039 ID N N . . . GT ./. +chr17 19093611 ID N N . . . GT ./. +chr17 50356597 ID N N . . . GT ./. +chr19 46674656 ID N N . . . GT ./. +chr20 7982394 ID N N . . . GT ./. +chr20 63540928 ID N N . . . GT ./. +chr22 19132425 ID N N . . . GT ./. diff --git a/Test/data_input/mrdCalculation01/dedup_DP1.tsv b/Test/data_input/mrdCalculation01/dedup_DP1.tsv new file mode 100644 index 0000000..99ed26c --- /dev/null +++ b/Test/data_input/mrdCalculation01/dedup_DP1.tsv @@ -0,0 +1,3471 @@ +CHROM POS REF DP DP_HQ REFf REFr Ag A Af Ar Aq Ao Cg C Cf Cr Cq Co Tg T Tf Tr Tq To Gg G Gf Gr Gq Go INSg INS INSf INSr INSq INSo DELg DEL DELf DELr DELq DELo Lq_alt_count N_count +chr1 26300927 T 116 112 58 53 T>A 1 1 0 37 0 T>C 0 0 0 0 0 T>T 111 58 53 4011 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr1 26300928 T 115 110 57 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 57 53 4031 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 2 0 +chr1 26300929 G 117 110 54 56 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 110 54 56 4033 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr1 26300930 C 117 114 57 57 C>A 0 0 0 0 0 C>C 114 57 57 4194 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr1 26300931 C 118 118 60 58 C>A 0 0 0 0 0 C>C 118 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C>A 0 0 0 0 0 C>C 193 97 96 7128 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984761 A 203 199 97 97 A>A 194 97 97 7094 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 AC>A 2 1 1 . 0 0 0 +chr8 143984762 C 203 196 98 97 C>A 0 0 0 0 0 C>C 195 98 97 7162 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984763 C 204 196 98 97 C>A 0 0 0 0 0 C>C 195 98 97 7149 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984764 A 204 197 96 100 A>A 196 96 100 7071 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984765 G 205 199 95 103 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 198 95 103 7240 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984766 C 208 198 94 102 C>A 0 0 0 0 0 C>C 196 94 102 7173 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CCCCTCTTGCTCTGGTGAGTCCATGGCAATTTCCACCAGG>C 1 1 0 . 0 1 0 +chr8 143984767 C 207 197 94 102 C>A 0 0 0 0 0 C>C 196 94 102 7177 0 C>T 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143984790 G 227 210 97 112 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 209 97 112 7567 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984791 G 226 194 94 99 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 193 94 99 7087 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 6 0 +chr8 143984792 C 235 228 98 128 C>A 0 0 0 0 0 C>C 226 98 128 8210 0 C>T 1 1 0 37 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984793 A 232 203 92 110 A>A 202 92 110 7335 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 2 1 +chr8 143984794 A 238 226 93 132 A>A 225 93 132 8104 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr8 143984795 T 237 226 91 134 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 225 91 134 8003 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr8 143984796 T 238 199 91 106 T>A 0 0 0 0 0 T>C 1 1 0 22 0 T>T 197 91 106 7013 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 7 0 +chr8 143984797 T 257 249 96 153 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 249 96 153 9009 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr8 143984798 C 256 246 92 154 C>A 0 0 0 0 0 C>C 246 92 154 9059 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984799 C 256 249 99 150 C>A 0 0 0 0 0 C>C 249 99 150 9149 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984800 A 255 245 99 146 A>A 245 99 146 8858 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 1 +chr8 143984801 C 254 247 100 146 C>A 0 0 0 0 0 C>C 246 100 146 9036 0 C>T 0 0 0 0 0 C>G 1 0 1 37 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr8 143984802 C 253 249 101 148 C>A 0 0 0 0 0 C>C 249 101 148 9117 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984803 A 256 246 100 146 A>A 246 100 146 9001 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 1 +chr8 143984804 G 255 244 99 145 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 244 99 145 8914 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984805 G 252 248 102 146 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 248 102 146 9103 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984806 C 254 245 103 142 C>A 0 0 0 0 0 C>C 245 103 142 8892 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984807 C 251 243 102 141 C>A 0 0 0 0 0 C>C 243 102 141 8869 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984808 C 250 239 104 135 C>A 0 0 0 0 0 C>C 239 104 135 8738 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984809 T 254 250 109 141 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 250 109 141 9099 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr8 143984810 C 255 249 109 140 C>A 0 0 0 0 0 C>C 249 109 140 9074 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984811 C 256 248 107 141 C>A 0 0 0 0 0 C>C 248 107 141 9089 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984812 T 255 245 103 142 T>A 0 0 0 0 0 T>C 0 0 0 0 0 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G>del 0 0 0 . 0 1 0 +chr8 143984820 C 243 239 116 123 C>A 0 0 0 0 0 C>C 239 116 123 8619 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984821 A 241 237 117 120 A>A 237 117 120 8501 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr8 143984822 A 239 232 116 116 A>A 232 116 116 8348 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 1 +chr8 143984823 C 241 237 116 121 C>A 0 0 0 0 0 C>C 237 116 121 8609 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984824 C 242 239 117 122 C>A 0 0 0 0 0 C>C 239 117 122 8671 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984825 C 242 238 117 121 C>A 0 0 0 0 0 C>C 238 117 121 8669 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984826 C 243 238 121 117 C>A 0 0 0 0 0 C>C 238 121 117 8743 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984827 T 242 227 111 116 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 227 111 116 8050 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 3 3 +chr8 143984828 T 242 232 119 113 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 232 119 113 8359 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 1 +chr8 143984829 A 237 228 120 108 A>A 228 120 108 8202 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr8 143984830 G 237 232 115 117 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 232 115 117 8496 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 1 +chr8 143984831 A 232 225 112 113 A>A 225 112 113 8145 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 3 0 +chr8 143984832 G 233 228 112 116 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 228 112 116 8305 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 2 +chr8 143984833 G 232 228 112 116 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 228 112 116 8362 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984834 T 235 231 115 116 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 231 115 116 8396 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr8 143984835 C 233 222 112 110 C>A 0 0 0 0 0 C>C 222 112 110 8070 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984836 T 235 234 115 119 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 234 115 119 8531 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984837 C 234 228 114 114 C>A 0 0 0 0 0 C>C 228 114 114 8335 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984838 C 228 222 113 109 C>A 0 0 0 0 0 C>C 222 113 109 8103 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984839 A 229 220 113 107 A>A 220 113 107 8015 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984840 C 228 219 114 105 C>A 0 0 0 0 0 C>C 219 114 105 7992 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984841 T 229 219 115 104 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 219 115 104 7988 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 5 2 +chr8 143984842 G 228 224 120 104 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 224 120 104 8160 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984843 G 230 224 117 107 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 224 117 107 8036 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984844 G 226 222 117 105 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 222 117 105 8085 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984845 C 224 218 118 100 C>A 0 0 0 0 0 C>C 218 118 100 7924 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984846 C 221 214 117 97 C>A 0 0 0 0 0 C>C 214 117 97 7856 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr8 143984847 T 221 216 120 96 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 216 120 96 7910 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr8 143984848 G 223 219 127 92 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 219 127 92 7960 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984849 C 218 212 124 88 C>A 0 0 0 0 0 C>C 212 124 88 7756 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C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984857 A 234 221 138 76 A>A 214 138 76 7823 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr8 143984858 C 231 224 135 82 C>A 0 0 0 0 0 C>C 217 135 82 7976 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984859 A 234 223 137 79 A>A 216 137 79 7780 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 4 0 +chr8 143984860 G 232 225 135 83 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 218 135 83 7961 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984861 G 232 229 136 76 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 212 136 76 7992 0 G>ins 0 0 0 . 0 GC>G 5 0 5 . 0 0 0 +chr8 143984862 C 229 221 136 78 C>A 0 0 0 0 0 C>C 214 136 78 7821 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 1 +chr8 143984863 C 225 218 136 75 C>A 0 0 0 0 0 C>C 211 136 75 7682 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984864 C 227 232 123 70 C>A 0 0 0 0 0 C>C 193 123 70 7536 0 C>T 1 1 0 37 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CCAGGCTCATGGGCCCCTCCTGTTCCTGCAACCCCACAGGCCT>C 17 7 10 . 0 1 0 +chr8 143984865 C 216 201 124 64 C>A 0 0 0 0 0 C>C 188 124 64 6882 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 3 +chr8 143984866 A 216 204 126 65 A>A 191 126 65 6982 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 3 3 +chr8 143984867 G 217 209 124 72 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 196 124 72 7224 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 4 +chr8 143984868 G 217 208 122 73 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 195 122 73 7166 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 4 +chr8 143984869 C 218 207 121 73 C>A 0 0 0 0 0 C>C 194 121 73 7117 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 6 +chr8 143984870 T 218 208 119 76 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 195 119 76 7020 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 4 +chr8 143984871 C 215 203 117 73 C>A 0 0 0 0 0 C>C 190 117 73 6942 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 3 2 +chr8 143984872 A 211 195 115 67 A>A 182 115 67 6590 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 3 2 +chr8 143984873 T 211 195 113 69 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 182 113 69 6526 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 3 3 +chr8 143984874 G 207 197 113 71 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 184 113 71 6680 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 2 2 +chr8 143984875 G 204 193 109 71 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 180 109 71 6568 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 3 2 +chr8 143984876 G 201 191 108 68 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 176 108 68 6511 0 G>ins 0 0 0 . 0 GC>G 1 1 0 . 0 3 2 +chr8 143984877 C 200 188 109 66 C>A 0 0 0 0 0 C>C 175 109 66 6398 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 3 2 +chr8 143984878 C 199 186 109 64 C>A 0 0 0 0 0 C>C 173 109 64 6330 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 2 +chr9 128261166 G 130 125 62 63 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 125 62 63 4567 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 2 0 +chr9 128261167 C 131 127 63 64 C>A 0 0 0 0 0 C>C 127 63 64 4675 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261168 T 130 124 59 65 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 124 59 65 4485 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261169 T 131 128 59 69 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 128 59 69 4692 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261170 A 131 132 62 68 A>A 130 62 68 4811 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 AC>A 1 0 1 . 0 0 0 +chr9 128261171 C 129 128 60 68 C>A 0 0 0 0 0 C>C 128 60 68 4728 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261172 C 129 125 59 66 C>A 0 0 0 0 0 C>C 125 59 66 4585 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261173 C 132 123 59 64 C>A 0 0 0 0 0 C>C 123 59 64 4508 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 1 +chr9 128261174 A 131 124 59 65 A>A 124 59 65 4461 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261175 T 133 132 59 72 T>A 1 1 0 30 0 T>C 0 0 0 0 0 T>T 131 59 72 4747 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261176 C 132 129 57 72 C>A 0 0 0 0 0 C>C 129 57 72 4718 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261177 T 135 128 55 73 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 128 55 73 4678 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr9 128261178 G 134 130 57 73 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 130 57 73 4718 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261179 G 135 132 60 72 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 132 60 72 4824 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261180 T 136 126 55 71 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 126 55 71 4429 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261181 T 137 135 60 75 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 135 60 75 4905 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261182 C 138 132 62 70 C>A 0 0 0 0 0 C>C 132 62 70 4834 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261183 C 139 137 62 72 C>A 0 0 0 0 0 C>C 134 62 72 4955 0 C>T 0 0 0 0 0 C>G 1 1 0 37 0 C>ins 0 0 0 . 0 CT>C 1 1 0 . 0 0 0 +chr9 128261184 T 141 136 61 75 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 136 61 75 4976 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261185 C 142 136 64 72 C>A 0 0 0 0 0 C>C 136 64 72 4999 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261186 A 141 138 64 74 A>A 138 64 74 5017 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261187 G 138 132 59 73 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 132 59 73 4818 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261188 T 137 133 60 73 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 133 60 73 4827 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261189 T 137 134 62 72 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 134 62 72 4790 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261190 C 135 128 59 69 C>A 0 0 0 0 0 C>C 128 59 69 4690 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr9 128261191 A 133 130 62 68 A>A 130 62 68 4700 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261192 G 128 120 54 66 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 120 54 66 4352 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 1 +chr9 128261193 C 127 123 58 65 C>A 0 0 0 0 0 C>C 123 58 65 4444 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261194 C 128 123 56 67 C>A 0 0 0 0 0 C>C 123 56 67 4496 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261195 A 127 124 57 67 A>A 124 57 67 4459 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261196 A 125 119 56 63 A>A 119 56 63 4298 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261197 G 123 119 55 64 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 119 55 64 4317 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 1 +chr9 128261198 C 124 121 57 64 C>A 0 0 0 0 0 C>C 121 57 64 4417 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261199 T 120 117 56 61 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 117 56 61 4244 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261200 C 120 116 59 57 C>A 0 0 0 0 0 C>C 116 59 57 4251 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261201 G 122 117 59 58 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 117 59 58 4278 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 1 +chr9 128261202 T 126 124 61 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 124 61 63 4544 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261203 C 126 120 59 61 C>A 0 0 0 0 0 C>C 120 59 61 4412 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261204 T 126 122 59 61 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 120 59 61 4418 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 TC>T 1 0 1 . 0 0 0 +chr9 128261205 C 126 121 61 60 C>A 0 0 0 0 0 C>C 121 61 60 4381 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261206 C 127 118 62 56 C>A 0 0 0 0 0 C>C 118 62 56 4326 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 3 0 +chr9 128261207 A 128 125 64 61 A>A 125 64 61 4534 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261208 G 122 116 63 53 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 116 63 53 4243 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr9 128261209 C 122 118 64 54 C>A 0 0 0 0 0 C>C 118 64 54 4269 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261210 T 121 116 60 56 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 60 56 4244 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261211 C 121 117 61 56 C>A 0 0 0 0 0 C>C 117 61 56 4261 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261212 C 120 116 61 53 C>A 0 0 0 0 0 C>C 114 61 53 4219 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CT>C 1 0 1 . 0 2 0 +chr9 128261213 T 121 115 59 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 114 59 55 4136 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261214 G 121 116 61 55 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 116 61 55 4188 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261215 T 122 116 61 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 61 55 4206 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261216 A 123 120 64 52 A>A 116 64 52 4324 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 AC>A 2 0 2 . 0 1 0 +chr9 128261217 C 119 113 59 54 C>A 0 0 0 0 0 C>C 113 59 54 4139 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261218 C 120 116 63 53 C>A 0 0 0 0 0 C>C 116 63 53 4170 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261219 C 120 112 57 55 C>A 0 0 0 0 0 C>C 112 57 55 4100 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr9 128261220 G 121 116 60 56 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 116 60 56 4203 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr9 128261221 A 120 115 60 55 A>A 115 60 55 4177 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 2 0 +chr9 128261222 C 117 111 59 52 C>A 0 0 0 0 0 C>C 111 59 52 4035 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261223 T 118 110 55 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 55 55 4015 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr9 128261224 C 121 116 61 55 C>A 0 0 0 0 0 C>C 116 61 55 4207 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261225 A 118 112 64 48 A>A 112 64 48 4002 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261226 T 116 111 36 35 T>A 0 0 0 0 0 T>C 40 25 15 1423 0 T>T 71 36 35 2591 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 4 0 +chr9 128261227 G 118 115 64 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 115 64 51 4207 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261228 C 118 111 62 49 C>A 0 0 0 0 0 C>C 111 62 49 4047 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261229 T 119 113 61 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 61 52 4024 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261230 A 119 112 59 53 A>A 112 59 53 4047 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261231 C 119 114 58 56 C>A 0 0 0 0 0 C>C 114 58 56 4122 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261232 A 120 114 59 55 A>A 114 59 55 4156 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261233 T 121 110 58 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 58 52 3845 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261234 T 122 118 61 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 118 61 57 4239 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261235 C 121 115 63 52 C>A 0 0 0 0 0 C>C 115 63 52 4115 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261236 C 122 118 61 49 C>A 0 0 0 0 0 C>C 110 61 49 4144 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CT>C 4 2 2 . 0 0 0 +chr9 128261237 T 122 113 63 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 63 50 4085 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261238 T 122 117 62 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 117 62 55 4267 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261239 C 125 121 68 53 C>A 0 0 0 0 0 C>C 121 68 53 4438 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261240 T 129 122 67 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 122 67 55 4458 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261241 C 129 124 67 57 C>A 0 0 0 0 0 C>C 124 67 57 4529 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261242 C 129 123 67 56 C>A 0 0 0 0 0 C>C 123 67 56 4427 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261243 T 126 116 64 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 64 52 4229 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 1 +chr9 128261244 C 127 124 68 56 C>A 0 0 0 0 0 C>C 124 68 56 4495 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261245 T 127 123 66 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 123 66 57 4448 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261246 C 127 122 69 53 C>A 0 0 0 0 0 C>C 122 69 53 4427 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261247 T 127 121 66 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 121 66 55 4315 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261248 C 127 123 69 54 C>A 0 0 0 0 0 C>C 123 69 54 4491 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261249 A 128 119 68 51 A>A 119 68 51 4322 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 1 +chr9 128261250 A 128 121 66 54 A>A 120 66 54 4238 0 A>C 0 0 0 0 0 A>T 1 0 1 37 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261251 T 127 121 64 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 121 64 57 4343 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261252 G 123 118 64 54 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 118 64 54 4306 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr9 128261253 T 125 116 61 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 61 55 4178 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261254 G 126 121 64 57 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 121 64 57 4390 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261255 T 124 121 63 58 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 121 63 58 4464 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261256 G 127 126 69 57 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 126 69 57 4621 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261257 C 126 121 66 55 C>A 0 0 0 0 0 C>C 121 66 55 4441 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261258 A 131 126 70 56 A>A 126 70 56 4594 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261259 C 131 124 71 53 C>A 0 0 0 0 0 C>C 124 71 53 4554 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr9 128261260 C 132 128 72 56 C>A 0 0 0 0 0 C>C 128 72 56 4627 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261261 T 136 131 76 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 131 76 55 4768 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261262 G 139 138 82 55 G>A 1 0 1 37 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 137 82 55 4991 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261263 C 139 134 80 54 C>A 0 0 0 0 0 C>C 134 80 54 4881 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261264 C 142 138 84 54 C>A 0 0 0 0 0 C>C 138 84 54 5030 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261265 C 148 141 88 53 C>A 0 0 0 0 0 C>C 141 88 53 5163 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261266 A 148 143 88 55 A>A 143 88 55 5223 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261267 A 152 143 89 54 A>A 143 89 54 5152 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261268 A 153 144 92 52 A>A 144 92 52 5226 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 0 +chr9 128261269 G 154 151 90 61 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 151 90 61 5465 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261270 C 157 153 93 60 C>A 0 0 0 0 0 C>C 153 93 60 5621 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261271 A 160 156 96 60 A>A 156 96 60 5706 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261272 C 160 157 94 63 C>A 0 0 0 0 0 C>C 157 94 63 5773 0 C>T 0 0 0 0 0 C>G 0 0 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66913488 C 162 156 81 75 C>A 0 0 0 0 0 C>C 156 81 75 5728 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr16 66913489 A 162 159 85 72 A>A 157 85 72 5760 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 AC>A 1 0 1 . 0 1 0 +chr16 66913490 C 165 161 86 75 C>A 0 0 0 0 0 C>C 161 86 75 5896 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr16 66913491 C 164 160 86 74 C>A 0 0 0 0 0 C>C 160 86 74 5853 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr16 66913492 T 163 160 85 75 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 160 85 75 5841 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 2 0 +chr16 66913493 C 164 161 85 76 C>A 0 0 0 0 0 C>C 161 85 76 5904 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr16 66913494 A 165 160 88 72 A>A 160 88 72 5821 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 1 +chr16 66913495 G 165 158 84 74 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 158 84 74 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0 C>del 0 0 0 . 0 0 0 +chr7 150742391 C 107 107 53 54 C>A 0 0 0 0 0 C>C 107 53 54 3922 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742392 T 104 104 49 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 104 49 55 3846 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742393 C 103 103 50 53 C>A 0 0 0 0 0 C>C 103 50 53 3805 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742394 C 103 103 49 54 C>A 0 0 0 0 0 C>C 103 49 54 3801 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742395 A 103 103 51 52 A>A 103 51 52 3809 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742396 T 103 103 50 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 103 50 53 3811 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742397 C 106 106 53 53 C>A 0 0 0 0 0 C>C 106 53 53 3917 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742398 T 104 104 53 51 T>A 0 0 0 0 0 T>C 0 0 0 0 0 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0 0 +chr7 150742452 C 148 148 97 51 C>A 0 0 0 0 0 C>C 148 97 51 5469 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742453 T 147 147 96 51 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 147 96 51 5437 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742454 G 149 149 98 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 149 98 51 5509 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 150742455 C 148 148 99 49 C>A 0 0 0 0 0 C>C 148 99 49 5468 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742456 T 147 147 97 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 147 97 50 5439 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742457 C 148 148 98 50 C>A 0 0 0 0 0 C>C 148 98 50 5470 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742458 T 148 148 98 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 148 98 50 5461 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742459 C 145 145 97 48 C>A 0 0 0 0 0 C>C 145 97 48 5363 0 C>T 0 0 0 0 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74 40 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 114 74 40 4207 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770158 G 113 113 73 40 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 113 73 40 4181 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770159 C 113 113 71 42 C>A 0 0 0 0 0 C>C 113 71 42 4156 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770160 C 112 112 69 43 C>A 0 0 0 0 0 C>C 112 69 43 4118 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770161 C 110 110 68 42 C>A 0 0 0 0 0 C>C 110 68 42 4064 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770162 T 108 108 67 41 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 108 67 41 3996 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770163 C 109 108 68 40 C>A 0 0 0 0 0 C>C 108 68 40 3970 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770164 C 106 105 67 38 C>A 0 0 0 0 0 C>C 105 67 38 3877 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770165 C 106 105 66 39 C>A 0 0 0 0 0 C>C 105 66 39 3875 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770166 C 106 105 66 39 C>A 0 0 0 0 0 C>C 105 66 39 3871 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770167 G 103 103 20 17 G>A 66 45 21 2442 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 37 20 17 1369 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984758 C 100 100 46 53 C>A 0 0 0 0 0 C>C 99 46 53 3662 0 C>T 1 0 1 37 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984759 C 102 102 45 57 C>A 0 0 0 0 0 C>C 102 45 57 3762 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984760 C 103 103 45 58 C>A 0 0 0 0 0 C>C 103 45 58 3796 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984761 A 102 102 43 59 A>A 102 43 59 3774 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984762 C 102 102 42 60 C>A 0 0 0 0 0 C>C 102 42 60 3766 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984763 C 102 102 42 60 C>A 0 0 0 0 0 C>C 102 42 60 3770 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984764 A 101 101 41 60 A>A 101 41 60 3737 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984765 G 102 102 42 60 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 102 42 60 3773 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984766 C 102 102 43 59 C>A 0 0 0 0 0 C>C 102 43 59 3751 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984767 C 103 103 43 60 C>A 0 0 0 0 0 C>C 103 43 60 3784 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984768 C 102 102 43 59 C>A 0 0 0 0 0 C>C 102 43 59 3747 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984769 C 102 102 41 61 C>A 0 0 0 0 0 C>C 102 41 61 3765 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 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0 0 0 +chr8 143984793 A 110 110 53 57 A>A 110 53 57 4051 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984794 A 112 112 56 56 A>A 112 56 56 4114 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984795 T 110 110 56 54 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 56 54 4057 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984796 T 111 111 57 54 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 57 54 4077 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984797 T 111 111 57 54 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 57 54 4097 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984798 C 112 112 57 55 C>A 0 0 0 0 0 C>C 112 57 55 4132 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984799 C 113 113 59 54 C>A 0 0 0 0 0 C>C 113 59 54 4178 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984800 A 116 116 62 54 A>A 116 62 54 4287 0 A>C 0 0 0 0 0 A>T 0 0 0 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53 C>A 0 0 0 0 0 C>C 118 65 53 4348 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984809 T 118 118 65 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 118 65 53 4362 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984810 C 120 120 69 51 C>A 0 0 0 0 0 C>C 120 69 51 4424 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984811 C 123 123 72 51 C>A 0 0 0 0 0 C>C 123 72 51 4544 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984812 T 125 125 73 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 125 73 52 4620 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984813 G 125 125 75 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 125 75 50 4621 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984814 C 126 126 77 49 C>A 0 0 0 0 0 C>C 126 77 49 4627 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984815 C 127 127 79 48 C>A 0 0 0 0 0 C>C 127 79 48 4633 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 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0 0 0 C>C 148 103 45 5471 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984847 T 150 150 105 45 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 150 105 45 5545 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984848 G 149 149 105 44 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 149 105 44 5511 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984849 C 153 153 109 44 C>A 0 0 0 0 0 C>C 153 109 44 5656 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984850 A 156 156 113 43 A>A 156 113 43 5760 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984851 G 161 161 117 44 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 161 117 44 5946 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984852 A 165 165 120 44 A>A 164 120 44 6064 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984853 C 165 165 117 47 C>A 0 0 0 0 0 C>C 164 117 47 6052 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984854 C 169 169 120 48 C>A 0 0 0 0 0 C>C 168 120 48 6152 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984855 C 169 169 120 48 C>A 0 0 0 0 0 C>C 168 120 48 6151 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984856 C 168 168 120 47 C>A 0 0 0 0 0 C>C 167 120 47 6138 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984857 A 169 169 120 48 A>A 168 120 48 6201 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984858 C 168 168 118 49 C>A 0 0 0 0 0 C>C 167 118 49 6179 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984859 A 168 168 117 50 A>A 167 117 50 6148 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984860 G 167 167 115 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 1 1 0 37 0 G>G 165 115 50 6101 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984861 G 167 167 114 52 G>A 0 0 0 0 0 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143984876 G 148 146 94 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 145 94 51 5358 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 2 0 +chr8 143984877 C 147 145 93 51 C>A 0 0 0 0 0 C>C 144 93 51 5305 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr8 143984878 C 147 145 93 51 C>A 0 0 0 0 0 C>C 144 93 51 5306 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 0 +chr9 128261166 G 81 81 24 57 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 81 24 57 2997 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261167 C 84 84 26 58 C>A 0 0 0 0 0 C>C 84 26 58 3105 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261168 T 85 85 27 58 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 85 27 58 3134 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261169 T 87 87 28 59 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 87 28 59 3216 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261170 A 87 87 28 59 A>A 87 28 59 3219 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261171 C 87 87 28 59 C>A 0 0 0 0 0 C>C 87 28 59 3219 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261172 C 87 87 28 59 C>A 0 0 0 0 0 C>C 87 28 59 3219 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261173 C 88 88 28 60 C>A 0 0 0 0 0 C>C 88 28 60 3248 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261174 A 89 89 27 62 A>A 89 27 62 3278 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261175 T 91 91 29 62 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 91 29 62 3365 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261176 C 92 92 30 62 C>A 0 0 0 0 0 C>C 92 30 62 3403 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261177 T 93 93 30 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 93 30 63 3439 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261178 G 93 93 30 63 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 93 30 63 3437 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261179 G 94 94 31 63 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 94 31 63 3476 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261180 T 94 93 30 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 93 30 63 3392 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr9 128261181 T 97 97 34 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 97 34 63 3586 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261182 C 97 97 33 64 C>A 0 0 0 0 0 C>C 97 33 64 3589 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261183 C 98 98 33 65 C>A 0 0 0 0 0 C>C 98 33 65 3625 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261184 T 99 99 34 65 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 99 34 65 3662 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261185 C 99 99 34 65 C>A 0 0 0 0 0 C>C 99 34 65 3662 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261186 A 100 100 36 64 A>A 100 36 64 3697 0 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36 55 C>A 0 0 0 0 0 C>C 91 36 55 3363 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261195 A 92 92 38 54 A>A 92 38 54 3377 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261196 A 91 91 37 54 A>A 91 37 54 3349 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261197 G 87 87 36 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 87 36 51 3218 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261198 C 88 88 37 51 C>A 0 0 0 0 0 C>C 88 37 51 3252 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261199 T 87 87 36 51 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 87 36 51 3218 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261200 C 87 87 37 50 C>A 0 0 0 0 0 C>C 87 37 50 3215 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261201 G 87 87 39 48 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 87 39 48 3215 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 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. 0 C>del 0 0 0 . 0 0 0 +chr9 128261210 T 83 83 39 44 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 83 39 44 3068 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261211 C 82 81 40 41 C>A 0 0 0 0 0 C>C 81 40 41 2989 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261212 C 82 81 38 43 C>A 0 0 0 0 0 C>C 81 38 43 2992 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261213 T 81 81 38 43 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 81 38 43 2990 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261214 G 78 78 38 40 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 78 38 40 2886 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261215 T 78 78 39 39 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 78 39 39 2884 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261216 A 80 80 40 40 A>A 80 40 40 2956 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261217 C 79 79 40 39 C>A 0 0 0 0 0 C>C 79 40 39 2923 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261218 C 80 80 41 39 C>A 0 0 0 0 0 C>C 80 41 39 2952 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261219 C 81 81 41 40 C>A 0 0 0 0 0 C>C 81 41 40 2981 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261220 G 81 81 41 40 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 81 41 40 2996 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261221 A 82 82 43 39 A>A 82 43 39 3032 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261222 C 82 82 43 39 C>A 0 0 0 0 0 C>C 82 43 39 3034 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261223 T 84 84 45 39 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 84 45 39 3096 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261224 C 85 85 46 39 C>A 0 0 0 0 0 C>C 85 46 39 3134 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261225 A 88 87 48 39 A>A 87 48 39 3198 0 A>C 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47 40 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 87 47 40 3200 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261234 T 87 86 47 39 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 86 47 39 3181 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261235 C 88 88 49 39 C>A 0 0 0 0 0 C>C 88 49 39 3239 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261236 C 88 89 49 38 C>A 0 0 0 0 0 C>C 87 49 38 3237 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CT>C 1 0 1 . 0 0 0 +chr9 128261237 T 85 85 50 35 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 85 50 35 3125 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261238 T 85 85 51 34 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 85 51 34 3131 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261239 C 84 84 51 33 C>A 0 0 0 0 0 C>C 84 51 33 3108 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261240 T 86 86 53 33 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 86 53 33 3175 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 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31 C>A 0 0 0 0 0 C>C 116 85 31 4277 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261265 C 116 116 86 30 C>A 0 0 0 0 0 C>C 116 86 30 4285 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261266 A 117 117 87 30 A>A 117 87 30 4310 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261267 A 117 117 87 30 A>A 117 87 30 4292 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261268 A 117 117 85 32 A>A 117 85 32 4313 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261269 G 116 116 84 32 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 116 84 32 4291 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261270 C 116 116 85 31 C>A 0 0 0 0 0 C>C 116 85 31 4291 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261271 A 117 117 86 31 A>A 117 86 31 4325 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 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68 56 C>A 0 0 0 0 0 C>C 124 68 56 4583 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742412 C 125 125 32 30 C>A 0 0 0 0 0 C>C 62 32 30 2287 0 C>T 63 36 27 2331 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742413 G 130 129 72 57 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 129 72 57 4765 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 150742414 A 131 131 72 59 A>A 131 72 59 4836 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742415 T 130 130 71 59 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 130 71 59 4806 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742416 A 132 132 74 58 A>A 132 74 58 4881 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742417 C 134 134 75 59 C>A 0 0 0 0 0 C>C 134 75 59 4952 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742418 C 134 134 74 60 C>A 0 0 0 0 0 C>C 134 74 60 4950 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742419 C 134 134 74 60 C>A 0 0 0 0 0 C>C 134 74 60 4951 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742420 A 132 132 74 58 A>A 132 74 58 4876 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742421 A 131 131 72 59 A>A 131 72 59 4847 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742422 G 132 131 72 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 131 72 59 4846 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 1 +chr7 150742423 A 134 134 72 62 A>A 134 72 62 4955 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742424 G 137 137 77 60 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 137 77 60 5064 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 150742425 C 140 140 79 61 C>A 0 0 0 0 0 C>C 140 79 61 5178 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742426 T 140 140 79 61 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 140 79 61 5179 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742427 G 145 145 82 63 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 145 82 63 5361 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 150742428 T 146 146 82 64 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 146 82 64 5401 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 150742429 A 146 146 82 64 A>A 146 82 64 5402 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742430 C 149 149 83 66 C>A 0 0 0 0 0 C>C 149 83 66 5508 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 150742431 A 149 149 84 65 A>A 149 84 65 5505 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742432 A 149 149 83 66 A>A 149 83 66 5511 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr7 150742433 G 151 151 84 67 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 151 84 67 5582 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 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0 0 0 0 0 G>G 106 48 58 3921 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770062 C 106 106 47 59 C>A 0 0 0 0 0 C>C 106 47 59 3914 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770063 C 106 106 48 58 C>A 0 0 0 0 0 C>C 106 48 58 3921 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770064 T 107 107 48 59 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 107 48 59 3957 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770065 G 110 110 51 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 110 51 59 4068 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770066 A 110 110 48 62 A>A 110 48 62 4070 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770067 T 114 114 52 62 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 114 52 62 4214 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770068 G 114 114 53 61 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 114 53 61 4216 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770069 C 113 113 51 62 C>A 0 0 0 0 0 C>C 113 51 62 4180 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770070 T 113 113 50 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 50 63 4167 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770071 G 112 112 53 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 112 53 59 4141 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770072 T 112 112 52 60 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 112 52 60 4119 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770073 T 111 111 52 59 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 52 59 4100 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770074 C 112 112 54 58 C>A 0 0 0 0 0 C>C 112 54 58 4139 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770075 T 111 111 53 58 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 53 58 4107 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770076 C 111 111 53 58 C>A 0 0 0 0 0 C>C 111 53 58 4107 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770077 A 111 111 53 58 A>A 111 53 58 4105 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770078 T 110 110 53 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 53 57 4039 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770079 T 108 108 52 56 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 108 52 56 3982 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770080 C 105 105 50 55 C>A 0 0 0 0 0 C>C 105 50 55 3885 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770081 G 107 107 51 56 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 107 51 56 3955 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770082 C 105 105 48 57 C>A 0 0 0 0 0 C>C 105 48 57 3868 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770083 C 105 105 47 58 C>A 0 0 0 0 0 C>C 105 47 58 3865 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770084 C 105 105 46 59 C>A 0 0 0 0 0 C>C 105 46 59 3863 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770085 A 107 107 48 59 A>A 107 48 59 3955 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770086 C 107 107 46 61 C>A 0 0 0 0 0 C>C 107 46 61 3956 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770087 T 106 106 45 61 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 106 45 61 3917 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770088 G 103 103 44 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 103 44 59 3810 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770089 C 105 105 44 61 C>A 0 0 0 0 0 C>C 105 44 61 3881 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770090 T 106 105 44 61 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 105 44 61 3883 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770091 G 105 104 44 60 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 104 44 60 3846 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770092 C 105 104 46 58 C>A 0 0 0 0 0 C>C 104 46 58 3832 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770093 C 106 105 48 57 C>A 0 0 0 0 0 C>C 105 48 57 3881 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770094 A 105 105 48 57 A>A 105 48 57 3852 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770095 A 102 101 46 55 A>A 101 46 55 3732 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770096 C 102 102 46 56 C>A 0 0 0 0 0 C>C 102 46 56 3765 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770097 C 104 104 47 57 C>A 0 0 0 0 0 C>C 104 47 57 3836 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770098 T 103 103 48 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 103 48 55 3809 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770099 C 102 102 47 55 C>A 0 0 0 0 0 C>C 102 47 55 3771 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770100 G 99 99 47 52 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 99 47 52 3647 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770101 G 99 99 48 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 99 48 51 3647 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770102 G 101 101 50 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 101 50 51 3719 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770103 C 101 101 50 51 C>A 0 0 0 0 0 C>C 101 50 51 3728 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770104 C 101 101 50 51 C>A 0 0 0 0 0 C>C 101 50 51 3725 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770105 A 105 105 54 51 A>A 105 54 51 3801 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770106 A 105 105 54 51 A>A 105 54 51 3801 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770107 G 104 104 19 17 G>A 68 35 33 2438 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 36 19 17 1332 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770108 C 107 106 55 51 C>A 0 0 0 0 0 C>C 106 55 51 3911 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770109 T 110 110 58 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 58 52 4053 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770110 G 112 112 59 53 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 112 59 53 4131 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770111 A 110 110 60 50 A>A 110 60 50 4063 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770112 T 110 110 60 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 60 50 4068 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770113 G 110 110 60 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 110 60 50 4069 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770114 A 111 111 61 50 A>A 111 61 50 4105 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 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0 0 G>G 116 68 48 4284 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770123 G 115 115 67 48 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 115 67 48 4255 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770124 C 115 115 66 49 C>A 0 0 0 0 0 C>C 115 66 49 4255 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770125 T 117 117 68 49 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 117 68 49 4325 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770126 G 119 118 68 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 118 68 50 4361 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770127 T 118 117 68 49 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 117 68 49 4327 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770128 G 118 117 70 47 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 117 70 47 4324 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770129 C 118 117 68 49 C>A 0 0 0 0 0 C>C 117 68 49 4327 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770130 G 120 119 70 49 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 119 70 49 4399 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770131 T 120 120 69 51 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 120 69 51 4437 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770132 A 122 121 71 50 A>A 121 71 50 4475 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770133 T 124 124 72 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 124 72 52 4559 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770134 C 125 125 72 53 C>A 0 0 0 0 0 C>C 125 72 53 4609 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770135 T 125 125 73 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 125 73 52 4605 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770136 T 128 128 75 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 128 75 53 4710 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770137 C 128 128 76 52 C>A 0 0 0 0 0 C>C 128 76 52 4704 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770138 C 128 128 77 51 C>A 0 0 0 0 0 C>C 128 77 51 4724 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770139 G 129 129 79 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 129 79 50 4743 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770140 G 129 129 77 52 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 129 77 52 4757 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770141 A 130 130 78 52 A>A 130 78 52 4808 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 106770142 G 132 132 79 53 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 132 79 53 4877 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770143 G 134 134 81 53 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 134 81 53 4930 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770144 G 134 134 79 55 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 134 79 55 4929 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770145 C 133 133 80 53 C>A 0 0 0 0 0 C>C 133 80 53 4917 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770146 G 134 134 81 53 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 134 81 53 4953 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770147 C 134 134 81 53 C>A 0 0 0 0 0 C>C 134 81 53 4951 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770148 T 133 133 81 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 133 81 52 4920 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770149 C 134 134 80 54 C>A 0 0 0 0 0 C>C 134 80 54 4956 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770150 T 134 134 79 55 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 134 79 55 4938 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770151 T 134 134 78 56 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 134 78 56 4953 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770152 G 135 135 79 56 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 135 79 56 4970 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770153 G 134 134 79 55 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 134 79 55 4957 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770154 C 135 135 78 57 C>A 0 0 0 0 0 C>C 135 78 57 4994 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770155 T 135 135 76 59 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 135 76 59 4993 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770156 G 133 133 74 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 133 74 59 4913 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770157 G 132 132 74 58 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 132 74 58 4884 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770158 G 132 132 74 58 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 132 74 58 4884 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 106770159 C 132 132 74 58 C>A 0 0 0 0 0 C>C 132 74 58 4867 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770160 C 130 130 74 56 C>A 0 0 0 0 0 C>C 130 74 56 4806 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770161 C 130 130 73 57 C>A 0 0 0 0 0 C>C 130 73 57 4804 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770162 T 129 129 72 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 129 72 57 4773 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 106770163 C 128 128 70 58 C>A 0 0 0 0 0 C>C 128 70 58 4712 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770164 C 129 129 71 58 C>A 0 0 0 0 0 C>C 129 71 58 4734 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770165 C 127 127 70 57 C>A 0 0 0 0 0 C>C 127 70 57 4676 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770166 C 126 125 69 56 C>A 0 0 0 0 0 C>C 125 69 56 4611 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 106770167 G 124 123 23 19 G>A 81 45 36 2986 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 42 23 19 1554 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 0 +chr8 143984758 C 103 103 50 53 C>A 0 0 0 0 0 C>C 103 50 53 3811 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984759 C 104 104 51 53 C>A 0 0 0 0 0 C>C 104 51 53 3840 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984760 C 104 104 51 53 C>A 0 0 0 0 0 C>C 104 51 53 3840 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984761 A 105 105 51 54 A>A 105 51 54 3884 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984762 C 106 106 50 56 C>A 0 0 0 0 0 C>C 106 50 56 3910 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984763 C 106 106 49 57 C>A 0 0 0 0 0 C>C 106 49 57 3920 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984764 A 107 107 49 58 A>A 107 49 58 3951 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984765 G 107 107 48 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 107 48 59 3959 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984766 C 112 112 52 60 C>A 0 0 0 0 0 C>C 112 52 60 4108 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984767 C 113 113 51 62 C>A 0 0 0 0 0 C>C 113 51 62 4141 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984768 C 114 114 52 62 C>A 0 0 0 0 0 C>C 114 52 62 4173 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984769 C 115 115 52 63 C>A 0 0 0 0 0 C>C 115 52 63 4219 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984770 T 115 115 51 64 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 115 51 64 4254 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984771 C 115 115 50 65 C>A 0 0 0 0 0 C>C 115 50 65 4248 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984772 T 115 115 49 66 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 115 49 66 4255 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984773 T 116 116 50 66 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 50 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120 49 71 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 120 49 71 4437 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984782 G 119 119 50 69 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 119 50 69 4400 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984783 A 118 118 50 68 A>A 118 50 68 4355 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984784 G 114 114 49 65 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 114 49 65 4217 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984785 T 115 115 50 65 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 115 50 65 4253 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984786 C 115 115 50 65 C>A 0 0 0 0 0 C>C 115 50 65 4218 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984787 C 112 112 51 61 C>A 0 0 0 0 0 C>C 112 51 61 4125 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984788 A 110 110 51 59 A>A 110 51 59 4062 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 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0 T>T 110 56 54 4054 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984797 T 110 110 56 54 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 56 54 4060 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984798 C 114 114 60 54 C>A 0 0 0 0 0 C>C 114 60 54 4185 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984799 C 112 112 60 52 C>A 0 0 0 0 0 C>C 112 60 52 4135 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984800 A 111 111 61 50 A>A 111 61 50 4102 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984801 C 110 110 59 51 C>A 0 0 0 0 0 C>C 110 59 51 4070 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984802 C 112 112 60 52 C>A 0 0 0 0 0 C>C 112 60 52 4142 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984803 A 114 114 61 53 A>A 114 61 53 4213 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 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0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984812 T 120 120 68 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 120 68 52 4437 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984813 G 121 121 70 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 121 70 51 4472 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984814 C 121 121 69 52 C>A 0 0 0 0 0 C>C 121 69 52 4449 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984815 C 122 122 68 54 C>A 0 0 0 0 0 C>C 122 68 54 4458 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984816 C 125 125 70 55 C>A 0 0 0 0 0 C>C 125 70 55 4524 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984817 C 125 125 69 56 C>A 0 0 0 0 0 C>C 125 69 56 4532 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984818 A 121 121 24 23 A>A 47 24 23 1738 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 74 42 32 2638 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984819 G 129 126 70 56 G>A 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0 0 . 0 0 0 +chr8 143984827 T 135 135 87 48 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 135 87 48 4965 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984828 T 135 135 88 47 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 135 88 47 4984 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984829 A 135 135 90 45 A>A 135 90 45 4990 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984830 G 139 139 93 46 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 139 93 46 5137 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984831 A 143 143 98 45 A>A 143 98 45 5281 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984832 G 144 144 99 45 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 144 99 45 5315 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984833 G 145 145 101 44 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 145 101 44 5358 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984834 T 147 147 103 44 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 147 103 44 5434 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984835 C 145 145 103 42 C>A 0 0 0 0 0 C>C 145 103 42 5365 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984836 T 146 146 103 43 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 146 103 43 5402 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984837 C 146 146 102 44 C>A 0 0 0 0 0 C>C 146 102 44 5392 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984838 C 147 147 103 44 C>A 0 0 0 0 0 C>C 147 103 44 5427 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984839 A 145 145 102 43 A>A 145 102 43 5364 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984840 C 146 146 103 43 C>A 0 0 0 0 0 C>C 146 103 43 5400 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984841 T 147 147 104 43 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 147 104 43 5438 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 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0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984850 A 160 160 114 46 A>A 160 114 46 5915 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984851 G 165 165 119 46 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 165 119 46 6100 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984852 A 167 167 119 48 A>A 167 119 48 6177 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984853 C 167 167 119 48 C>A 0 0 0 0 0 C>C 167 119 48 6154 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984854 C 168 168 119 49 C>A 0 0 0 0 0 C>C 168 119 49 6168 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984855 C 167 167 119 48 C>A 0 0 0 0 0 C>C 167 119 48 6142 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984856 C 166 166 119 47 C>A 0 0 0 0 0 C>C 166 119 47 6119 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 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0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CCAGGCTCATGGGCCCCTCCTGTTCCTGCAACCCCACAGGCCT>C 7 3 4 . 0 0 0 +chr8 143984865 C 150 150 107 43 C>A 0 0 0 0 0 C>C 150 107 43 5536 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984866 A 147 147 103 44 A>A 147 103 44 5439 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984867 G 148 148 104 44 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 148 104 44 5468 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984868 G 146 146 102 44 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 146 102 44 5402 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984869 C 147 147 99 48 C>A 0 0 0 0 0 C>C 147 99 48 5439 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984870 T 148 148 99 49 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 148 99 49 5474 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984871 C 146 146 96 50 C>A 0 0 0 0 0 C>C 146 96 50 5402 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984872 A 147 147 95 52 A>A 147 95 52 5432 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984873 T 146 146 93 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 146 93 53 5401 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984874 G 148 148 94 54 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 148 94 54 5462 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984875 G 148 148 93 55 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 148 93 55 5457 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984876 G 147 147 93 54 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 147 93 54 5432 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984877 C 146 146 92 54 C>A 0 0 0 0 0 C>C 146 92 54 5345 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984878 C 143 143 89 54 C>A 0 0 0 0 0 C>C 143 89 54 5243 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261166 G 95 95 43 52 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 95 43 52 3507 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261167 C 98 98 45 53 C>A 0 0 0 0 0 C>C 98 45 53 3623 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261168 T 100 100 47 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 100 47 53 3684 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261169 T 101 101 47 54 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 101 47 54 3733 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261170 A 102 102 47 55 A>A 102 47 55 3773 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261171 C 103 103 47 56 C>A 0 0 0 0 0 C>C 103 47 56 3798 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261172 C 103 103 47 56 C>A 0 0 0 0 0 C>C 103 47 56 3799 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261173 C 104 104 48 56 C>A 0 0 0 0 0 C>C 104 48 56 3838 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261174 A 105 105 49 56 A>A 105 49 56 3884 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261175 T 105 105 49 56 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 105 49 56 3884 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261176 C 106 106 50 56 C>A 0 0 0 0 0 C>C 106 50 56 3922 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261177 T 106 106 49 57 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 106 49 57 3915 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261178 G 107 107 49 58 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 107 49 58 3947 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261179 G 108 108 49 59 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 108 49 59 3989 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261180 T 109 109 46 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 109 46 63 4007 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261181 T 109 109 46 63 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 109 46 63 4021 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261182 C 109 109 45 64 C>A 0 0 0 0 0 C>C 109 45 64 4021 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261183 C 108 108 44 64 C>A 0 0 0 0 0 C>C 108 44 64 3995 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261184 T 107 107 41 66 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 107 41 66 3959 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261185 C 108 108 41 67 C>A 0 0 0 0 0 C>C 108 41 67 3996 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261186 A 110 110 42 68 A>A 110 42 68 4067 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261187 G 110 110 43 67 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 110 43 67 4069 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261188 T 111 111 44 67 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 44 67 4094 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261189 T 110 110 44 66 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 44 66 4065 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261190 C 109 109 44 65 C>A 0 0 0 0 0 C>C 109 44 65 4032 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261191 A 109 109 46 63 A>A 109 46 63 4023 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261192 G 108 108 46 62 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 108 46 62 3984 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261193 C 104 104 43 61 C>A 0 0 0 0 0 C>C 104 43 61 3822 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261194 C 103 103 43 60 C>A 0 0 0 0 0 C>C 103 43 60 3794 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261195 A 103 103 45 58 A>A 103 45 58 3786 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261196 A 102 102 44 58 A>A 102 44 58 3757 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261197 G 100 100 44 56 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 100 44 56 3693 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261198 C 100 100 44 56 C>A 0 0 0 0 0 C>C 100 44 56 3684 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261199 T 99 99 47 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 99 47 52 3658 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261200 C 99 99 48 51 C>A 0 0 0 0 0 C>C 99 48 51 3660 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261201 G 98 98 48 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 98 48 50 3624 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261202 T 99 99 49 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 99 49 50 3663 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261203 C 100 100 50 50 C>A 0 0 0 0 0 C>C 100 50 50 3699 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261204 T 101 101 50 51 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 101 50 51 3735 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261205 C 101 101 49 52 C>A 0 0 0 0 0 C>C 101 49 52 3737 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261206 C 101 101 48 53 C>A 0 0 0 0 0 C>C 101 48 53 3737 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261207 A 101 101 48 53 A>A 101 48 53 3737 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261208 G 101 101 47 54 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 101 47 54 3736 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261209 C 101 101 49 52 C>A 0 0 0 0 0 C>C 101 49 52 3735 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261210 T 103 103 50 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 103 50 53 3810 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261211 C 105 105 52 53 C>A 0 0 0 0 0 C>C 105 52 53 3860 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261212 C 104 104 53 51 C>A 0 0 0 0 0 C>C 104 53 51 3841 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261213 T 104 104 54 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 104 54 50 3847 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261214 G 104 104 53 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 104 53 51 3847 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261215 T 105 105 53 52 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 105 53 52 3882 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261216 A 106 106 54 52 A>A 106 54 52 3920 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261217 C 106 106 54 52 C>A 0 0 0 0 0 C>C 106 54 52 3911 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261218 C 106 106 55 51 C>A 0 0 0 0 0 C>C 106 55 51 3902 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261219 C 107 107 56 51 C>A 0 0 0 0 0 C>C 107 56 51 3932 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261220 G 107 107 56 51 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 107 56 51 3955 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261221 A 107 107 56 51 A>A 107 56 51 3958 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261222 C 108 108 56 52 C>A 0 0 0 0 0 C>C 108 56 52 3993 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261223 T 110 110 57 53 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 57 53 4037 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261224 C 113 111 59 52 C>A 0 0 0 0 0 C>C 111 59 52 4072 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261225 A 114 111 61 50 A>A 111 61 50 4074 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261226 T 111 110 34 32 T>A 0 0 0 0 0 T>C 44 26 18 1598 0 T>T 66 34 32 2442 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261227 G 112 112 62 50 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 112 62 50 4132 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261228 C 112 112 62 50 C>A 0 0 0 0 0 C>C 112 62 50 4142 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261229 T 110 110 60 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 110 60 50 4062 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261230 A 113 113 62 51 A>A 113 62 51 4162 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261231 C 113 113 63 50 C>A 0 0 0 0 0 C>C 113 63 50 4172 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261232 A 111 111 59 52 A>A 111 59 52 4090 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261233 T 111 111 61 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 61 50 4099 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261234 T 112 112 62 50 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 112 62 50 4139 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261235 C 112 112 63 49 C>A 0 0 0 0 0 C>C 112 63 49 4126 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261236 C 113 113 65 48 C>A 0 0 0 0 0 C>C 113 65 48 4170 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261237 T 111 111 65 46 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 111 65 46 4098 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261238 T 112 112 67 45 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 112 67 45 4137 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261239 C 113 113 67 46 C>A 0 0 0 0 0 C>C 113 67 46 4179 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261240 T 113 113 66 47 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 66 47 4180 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261241 C 112 112 66 46 C>A 0 0 0 0 0 C>C 112 66 46 4135 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261242 C 114 113 66 47 C>A 0 0 0 0 0 C>C 113 66 47 4174 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261243 T 114 113 66 47 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 66 47 4178 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261244 C 114 113 64 49 C>A 0 0 0 0 0 C>C 113 64 49 4164 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261245 T 114 113 64 49 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 64 49 4158 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261246 C 116 115 68 47 C>A 0 0 0 0 0 C>C 115 68 47 4227 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr9 128261247 T 113 112 68 44 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 112 68 44 4142 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261248 C 112 112 69 43 C>A 0 0 0 0 0 C>C 112 69 43 4140 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261249 A 113 113 72 41 A>A 113 72 41 4156 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261250 A 115 115 73 42 A>A 115 73 42 4221 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261251 T 113 113 71 42 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 71 42 4179 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261252 G 112 112 71 41 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 112 71 41 4144 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261253 T 113 113 72 41 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 113 72 41 4171 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261254 G 115 115 73 42 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 115 73 42 4239 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261255 T 116 116 75 41 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 116 75 41 4286 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261256 G 114 114 74 40 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 114 74 40 4217 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261257 C 115 115 75 40 C>A 0 0 0 0 0 C>C 115 75 40 4254 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261258 A 122 122 82 40 A>A 122 82 40 4507 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261259 C 121 121 80 41 C>A 0 0 0 0 0 C>C 121 80 41 4459 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261260 C 121 121 80 41 C>A 0 0 0 0 0 C>C 121 80 41 4467 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261261 T 122 122 78 44 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 122 78 44 4502 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261262 G 120 120 78 42 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 120 78 42 4439 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261263 C 122 122 79 43 C>A 0 0 0 0 0 C>C 122 79 43 4492 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261264 C 122 122 80 42 C>A 0 0 0 0 0 C>C 122 80 42 4490 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261265 C 121 121 80 41 C>A 0 0 0 0 0 C>C 121 80 41 4454 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261266 A 122 122 79 43 A>A 122 79 43 4508 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261267 A 122 122 78 44 A>A 122 78 44 4506 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261268 A 122 122 78 44 A>A 122 78 44 4507 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261269 G 122 122 77 45 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 122 77 45 4512 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261270 C 121 121 76 45 C>A 0 0 0 0 0 C>C 121 76 45 4474 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261271 A 121 121 76 45 A>A 121 76 45 4474 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261272 C 120 120 74 46 C>A 0 0 0 0 0 C>C 120 74 46 4439 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261273 A 119 119 74 45 A>A 119 74 45 4401 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261274 G 118 118 70 48 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 118 70 48 4365 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261275 C 120 120 70 50 C>A 0 0 0 0 0 C>C 120 70 50 4437 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261276 A 118 118 70 48 A>A 118 70 48 4358 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261277 A 117 117 70 47 A>A 117 70 47 4329 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261278 G 117 117 70 47 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 117 70 47 4329 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261279 A 117 117 70 47 A>A 117 70 47 4312 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261280 A 117 117 69 48 A>A 117 69 48 4303 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 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C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 100577855 G 2517 2517 1134 1383 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2517 1134 1383 92085 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 100577856 G 2515 2515 1133 1382 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2515 1133 1382 91941 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 100577857 G 2515 2515 1138 1377 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2515 1138 1377 91996 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 100577858 G 2505 2505 1131 1374 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2505 1131 1374 92125 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr7 100577859 C 2501 2501 1117 1384 C>A 0 0 0 0 0 C>C 2501 1117 1384 92452 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr7 100577860 T 2502 2502 1122 1380 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2502 1122 1380 92529 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr7 100577861 C 2494 2494 1118 1376 C>A 0 0 0 0 0 C>C 2494 1118 1376 91859 0 C>T 0 0 0 0 0 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A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984832 G 2420 2420 1228 1192 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2420 1228 1192 89277 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984833 G 2418 2418 1238 1179 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 1 0 1 37 0 G>G 2417 1238 1179 89300 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984834 T 2411 2411 1232 1179 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2411 1232 1179 89162 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984835 C 2414 2414 1232 1182 C>A 0 0 0 0 0 C>C 2414 1232 1182 89262 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984836 T 2420 2420 1226 1194 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2420 1226 1194 89478 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984837 C 2416 2416 1229 1187 C>A 0 0 0 0 0 C>C 2416 1229 1187 89156 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984838 C 2417 2417 1223 1194 C>A 0 0 0 0 0 C>C 2417 1223 1194 89253 0 C>T 0 0 0 0 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0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984846 C 2362 2361 1199 1162 C>A 0 0 0 0 0 C>C 2361 1199 1162 87244 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984847 T 2359 2358 1186 1172 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2358 1186 1172 87193 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr8 143984848 G 2341 2340 1171 1168 G>A 1 1 0 37 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2339 1171 1168 86511 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984849 C 2339 2337 1161 1176 C>A 0 0 0 0 0 C>C 2337 1161 1176 86412 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984850 A 2313 2313 1131 1182 A>A 2313 1131 1182 85509 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984851 G 2300 2301 1118 1181 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2299 1118 1181 85061 0 G>ins 0 0 0 . 0 GACCCCACAGGCCCCAGGCTCATGGGCCCCTCCTGTTCCTGCA>G 1 0 1 . 0 0 0 +chr8 143984852 A 2284 2283 1110 1173 A>A 2283 1110 1173 84432 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 1 +chr8 143984853 C 2264 2263 1092 1171 C>A 0 0 0 0 0 C>C 2263 1092 1171 83306 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984854 C 2250 2249 1069 1180 C>A 0 0 0 0 0 C>C 2249 1069 1180 82708 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984855 C 2242 2241 1054 1187 C>A 0 0 0 0 0 C>C 2241 1054 1187 82451 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984856 C 2233 2232 1029 1203 C>A 0 0 0 0 0 C>C 2232 1029 1203 82309 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 1 +chr8 143984857 A 2216 2215 1006 1209 A>A 2215 1006 1209 81871 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 1 +chr8 143984858 C 2195 2194 991 1203 C>A 0 0 0 0 0 C>C 2194 991 1203 81144 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984859 A 2174 2173 973 1200 A>A 2173 973 1200 80371 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr8 143984860 G 2154 2154 956 1198 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2154 956 1198 79521 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984861 G 2138 2138 936 1202 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2138 936 1202 79016 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr8 143984862 C 2129 2128 925 1203 C>A 0 0 0 0 0 C>C 2128 925 1203 78088 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 1 0 +chr8 143984863 C 2115 2114 908 1206 C>A 0 0 0 0 0 C>C 2114 908 1206 77468 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr8 143984864 C 2101 2192 868 1141 C>A 0 0 0 0 0 C>C 2009 868 1141 77058 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 CCAGGCTCATGGGCCCCTCCTGTTCCTGCAACCCCACAGGCCT>C 92 21 71 . 0 0 0 +chr8 143984865 C 1991 1960 849 1111 C>A 0 0 0 0 0 C>C 1960 849 1111 72383 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 31 +chr8 143984866 A 1984 1951 838 1113 A>A 1951 838 1113 72181 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 1 31 +chr8 143984867 G 1985 1953 824 1129 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1953 824 1129 72185 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 31 +chr8 143984868 G 1981 1949 798 1151 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1949 798 1151 72089 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 1 31 +chr8 143984869 C 1982 1949 783 1166 C>A 0 0 0 0 0 C>C 1949 783 1166 72095 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 2 31 +chr8 143984870 T 1979 1946 776 1170 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1946 776 1170 71993 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 2 31 +chr8 143984871 C 1977 1943 764 1179 C>A 0 0 0 0 0 C>C 1943 764 1179 71857 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 21 13 +chr8 143984872 A 1947 1913 745 1168 A>A 1913 745 1168 70765 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 21 13 +chr8 143984873 T 1937 1903 734 1169 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1903 734 1169 70374 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 21 13 +chr8 143984874 G 1916 1882 711 1171 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1882 711 1171 69187 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 21 13 +chr8 143984875 G 1893 1860 689 1171 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1860 689 1171 68417 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 20 13 +chr8 143984876 G 1878 1846 670 1176 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1846 670 1176 68090 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 19 13 +chr8 143984877 C 1855 1823 655 1168 C>A 0 0 0 0 0 C>C 1823 655 1168 67000 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 19 13 +chr8 143984878 C 1845 1813 640 1173 C>A 0 0 0 0 0 C>C 1813 640 1173 66538 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 19 13 +chr9 128261166 G 1689 1689 1020 669 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1689 1020 669 62472 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261167 C 1700 1700 1009 691 C>A 0 0 0 0 0 C>C 1700 1009 691 62881 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261168 T 1718 1718 1006 712 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1718 1006 712 63474 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261169 T 1729 1729 1000 729 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1729 1000 729 63925 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261170 A 1745 1745 999 746 A>A 1745 999 746 64542 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261171 C 1762 1762 1003 759 C>A 0 0 0 0 0 C>C 1762 1003 759 65036 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261172 C 1776 1776 1005 771 C>A 0 0 0 0 0 C>C 1776 1005 771 65451 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261173 C 1790 1790 995 795 C>A 0 0 0 0 0 C>C 1790 995 795 66037 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261174 A 1804 1804 996 808 A>A 1804 996 808 66731 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261175 T 1818 1818 997 821 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1818 997 821 67246 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261176 C 1833 1833 996 837 C>A 0 0 0 0 0 C>C 1833 996 837 67802 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261177 T 1844 1844 991 853 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1844 991 853 68215 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261178 G 1857 1857 984 873 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1857 984 873 68637 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261179 G 1871 1871 988 883 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1871 988 883 69182 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261180 T 1884 1884 980 904 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1884 980 904 69623 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261181 T 1899 1899 980 919 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1899 980 919 70222 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261182 C 1918 1918 978 940 C>A 0 0 0 0 0 C>C 1918 978 940 70856 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261183 C 1930 1930 972 958 C>A 0 0 0 0 0 C>C 1930 972 958 71368 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261184 T 1942 1942 966 976 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1942 966 976 71839 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261185 C 1946 1946 958 988 C>A 0 0 0 0 0 C>C 1946 958 988 71990 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261186 A 1967 1967 964 1003 A>A 1967 964 1003 72750 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261187 G 1979 1979 957 1022 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1979 957 1022 73202 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261188 T 1987 1987 953 1034 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1987 953 1034 73449 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261189 T 2004 2004 949 1055 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2004 949 1055 74092 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261190 C 2008 2008 941 1067 C>A 0 0 0 0 0 C>C 2008 941 1067 74269 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261191 A 2025 2025 946 1079 A>A 2025 946 1079 74884 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261192 G 2034 2034 942 1091 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 1 1 0 24 0 G>G 2033 942 1091 75197 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261193 C 2040 2040 936 1104 C>A 0 0 0 0 0 C>C 2040 936 1104 75331 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261194 C 2049 2049 937 1112 C>A 0 0 0 0 0 C>C 2049 937 1112 75725 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261195 A 2067 2067 955 1112 A>A 2067 955 1112 76198 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261196 A 2058 2058 945 1113 A>A 2058 945 1113 76000 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261197 G 2053 2053 946 1107 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2053 946 1107 75920 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261198 C 2040 2040 938 1102 C>A 0 0 0 0 0 C>C 2040 938 1102 75440 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261199 T 2045 2045 937 1108 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2045 937 1108 75625 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261200 C 2045 2045 943 1102 C>A 0 0 0 0 0 C>C 2045 943 1102 75610 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261201 G 2052 2052 971 1081 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2052 971 1081 75871 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261202 T 2056 2056 966 1090 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2056 966 1090 76024 0 T>G 0 0 0 0 0 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0 C>del 0 0 0 . 0 0 0 +chr9 128261210 T 2068 2068 977 1091 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2068 977 1091 76474 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261211 C 2069 2069 973 1096 C>A 0 0 0 0 0 C>C 2069 973 1096 76358 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261212 C 2072 2072 976 1096 C>A 0 0 0 0 0 C>C 2072 976 1096 76588 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261213 T 2076 2076 978 1098 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2076 978 1098 76743 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261214 G 2060 2060 978 1082 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2060 978 1082 76196 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261215 T 2068 2068 983 1085 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2068 983 1085 76467 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261216 A 2057 2057 986 1071 A>A 2057 986 1071 76066 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261217 C 2047 2047 976 1071 C>A 0 0 0 0 0 C>C 2047 976 1071 75300 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261218 C 2037 2037 976 1061 C>A 0 0 0 0 0 C>C 2037 976 1061 74812 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261219 C 2041 2041 980 1061 C>A 0 0 0 0 0 C>C 2041 980 1061 75079 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261220 G 2014 2014 988 1026 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2014 988 1026 74471 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261221 A 2017 2017 995 1022 A>A 2017 995 1022 74581 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261222 C 2007 2007 998 1009 C>A 0 0 0 0 0 C>C 2007 998 1009 74201 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261223 T 2005 2005 1002 1003 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2005 1002 1003 74082 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261224 C 2015 1995 1007 988 C>A 0 0 0 0 0 C>C 1995 1007 988 73648 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261225 A 2016 1989 1007 982 A>A 1989 1007 982 73333 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261226 T 1975 1960 623 619 T>A 0 0 0 0 0 T>C 718 368 350 26181 0 T>T 1242 623 619 45936 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 15 0 +chr9 128261227 G 1988 1974 1005 969 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1974 1005 969 72683 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261228 C 1989 1983 1006 977 C>A 0 0 0 0 0 C>C 1983 1006 977 73078 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261229 T 1984 1984 1010 974 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1984 1010 974 73217 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261230 A 1975 1975 1015 960 A>A 1975 1015 960 73008 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261231 C 1967 1967 1002 965 C>A 0 0 0 0 0 C>C 1967 1002 965 72719 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261232 A 1966 1965 998 967 A>A 1965 998 967 72599 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261233 T 1961 1960 997 963 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1960 997 963 72260 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 1 0 +chr9 128261234 T 1944 1943 993 950 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1943 993 950 71811 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261235 C 1940 1939 995 943 C>A 1 0 1 37 0 C>C 1938 995 943 71508 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261236 C 1942 1942 984 958 C>A 0 0 0 0 0 C>C 1942 984 958 71747 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261237 T 1966 1964 1004 959 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1963 1004 959 72316 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 1 +chr9 128261238 T 1967 1966 1000 966 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1966 1000 966 72610 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261239 C 1966 1965 998 967 C>A 0 0 0 0 0 C>C 1965 998 967 72623 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261240 T 1963 1962 1001 961 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1962 1001 961 72547 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261241 C 1960 1959 1000 959 C>A 0 0 0 0 0 C>C 1959 1000 959 72283 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261242 C 1963 1963 1003 960 C>A 0 0 0 0 0 C>C 1963 1003 960 72556 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261243 T 1978 1978 1008 969 T>A 1 1 0 37 0 T>C 0 0 0 0 0 T>T 1977 1008 969 73047 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261244 C 1967 1967 1003 964 C>A 0 0 0 0 0 C>C 1967 1003 964 72553 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261245 T 1996 1996 1022 974 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1996 1022 974 73473 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261246 C 2000 2000 1019 981 C>A 0 0 0 0 0 C>C 2000 1019 981 73683 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261247 T 1998 1998 1021 977 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1998 1021 977 73871 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261248 C 1999 1999 1016 983 C>A 0 0 0 0 0 C>C 1999 1016 983 73915 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261249 A 2006 2006 1015 991 A>A 2006 1015 991 73952 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261250 A 2003 2003 1009 994 A>A 2003 1009 994 73984 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261251 T 1997 1997 1009 988 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1997 1009 988 73834 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261252 G 1990 1990 1006 984 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1990 1006 984 73585 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261253 T 1992 1992 991 1001 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1992 991 1001 73544 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261254 G 1984 1984 989 995 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1984 989 995 73268 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261255 T 1978 1978 987 991 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1978 987 991 73145 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261256 G 1968 1968 986 982 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1968 986 982 72792 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261257 C 1966 1966 983 983 C>A 0 0 0 0 0 C>C 1966 983 983 72683 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261258 A 1959 1959 979 980 A>A 1959 979 980 72461 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr9 128261259 C 1951 1951 969 982 C>A 0 0 0 0 0 C>C 1951 969 982 72044 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261260 C 1948 1948 958 990 C>A 0 0 0 0 0 C>C 1948 958 990 71985 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261261 T 1933 1933 953 980 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1933 953 980 71493 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr9 128261262 G 1912 1912 942 970 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1912 942 970 70719 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr9 128261263 C 1895 1895 926 969 C>A 0 0 0 0 0 C>C 1895 926 969 69804 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261264 C 1874 1874 903 971 C>A 0 0 0 0 0 C>C 1874 903 971 69122 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261265 C 1867 1867 894 973 C>A 0 0 0 0 0 C>C 1867 894 973 68977 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr9 128261266 A 1855 1855 888 967 A>A 1855 888 967 68383 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 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0 0 C>C 1982 983 999 72973 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362150 C 2000 2000 985 1015 C>A 0 0 0 0 0 C>C 2000 985 1015 73329 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362151 C 2007 2007 985 1022 C>A 0 0 0 0 0 C>C 2007 985 1022 73461 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362152 C 2008 2008 983 1025 C>A 0 0 0 0 0 C>C 2008 983 1025 73709 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362153 G 2014 2014 995 1019 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2014 995 1019 74373 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362154 C 2019 2004 980 1024 C>A 0 0 0 0 0 C>C 2004 980 1024 73930 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362155 C 2034 1991 966 1025 C>A 0 0 0 0 0 C>C 1991 966 1025 73156 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362156 A 1986 1938 215 218 A>A 433 215 218 16015 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 1505 734 771 55461 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 48 0 +chr10 71362157 T 2031 1983 980 1003 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1983 980 1003 72850 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362158 C 2027 2027 1020 1007 C>A 0 0 0 0 0 C>C 2027 1020 1007 74409 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362159 T 2032 2032 1028 1004 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2032 1028 1004 75107 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362160 G 2019 2019 1027 991 G>A 0 0 0 0 0 G>C 1 1 0 37 0 G>T 0 0 0 0 0 G>G 2018 1027 991 74628 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362161 C 2021 2021 1040 981 C>A 0 0 0 0 0 C>C 2021 1040 981 74705 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362162 A 2015 2015 1032 983 A>A 2015 1032 983 74531 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362163 C 2009 2009 1019 990 C>A 0 0 0 0 0 C>C 2009 1019 990 74117 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362164 C 1998 1998 1014 984 C>A 0 0 0 0 0 C>C 1998 1014 984 73843 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362165 A 1997 1997 1007 990 A>A 1997 1007 990 73643 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362166 A 1990 1990 1002 988 A>A 1990 1002 988 73491 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362167 C 1978 1978 992 986 C>A 0 0 0 0 0 C>C 1978 992 986 73157 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362168 A 1979 1979 993 986 A>A 1979 993 986 73163 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362169 T 1968 1968 981 987 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1968 981 987 72777 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362170 C 1957 1957 975 982 C>A 0 0 0 0 0 C>C 1957 975 982 72356 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362171 G 1970 1970 1007 963 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1970 1007 963 72801 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362172 A 1970 1970 1003 967 A>A 1970 1003 967 72858 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362173 G 1976 1976 1004 972 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1976 1004 972 73077 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362174 T 1980 1980 1001 979 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1980 1001 979 73223 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362175 C 1977 1977 990 987 C>A 0 0 0 0 0 C>C 1977 990 987 72840 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362176 C 1982 1982 978 1004 C>A 0 0 0 0 0 C>C 1982 978 1004 72932 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362177 C 1990 1990 983 1007 C>A 0 0 0 0 0 C>C 1990 983 1007 73335 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362178 T 1996 1996 983 1013 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1996 983 1013 73820 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362179 C 1997 1997 978 1019 C>A 0 0 0 0 0 C>C 1997 978 1019 73860 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362180 A 2000 2000 975 1025 A>A 2000 975 1025 73812 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362181 A 1998 1998 970 1028 A>A 1998 970 1028 73816 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362182 C 2000 2000 970 1030 C>A 0 0 0 0 0 C>C 2000 970 1030 73967 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362183 A 1997 1997 963 1034 A>A 1997 963 1034 73723 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362184 A 2001 2001 961 1040 A>A 2001 961 1040 73937 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362185 G 1997 1997 964 1033 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1997 964 1033 73585 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362186 G 2000 2000 955 1045 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2000 955 1045 73437 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362187 G 1998 1979 942 1037 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1979 942 1037 72663 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362188 T 1942 1933 0 0 T>A 0 0 0 0 0 T>C 1933 921 1012 70476 0 T>T 0 0 0 0 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 9 0 +chr10 71362189 T 1983 1967 943 1024 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1967 943 1024 71589 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362190 C 1995 1979 948 1031 C>A 0 0 0 0 0 C>C 1979 948 1031 72782 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362191 G 1998 1998 982 1016 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1998 982 1016 73441 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362192 G 1998 1998 987 1010 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 1 0 1 37 0 G>G 1997 987 1010 73333 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362193 G 2001 2001 992 1009 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2001 992 1009 73754 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362194 C 2007 2007 993 1014 C>A 0 0 0 0 0 C>C 2007 993 1014 74203 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362195 T 2009 2009 996 1013 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2009 996 1013 74301 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362196 C 2011 2011 992 1019 C>A 0 0 0 0 0 C>C 2011 992 1019 74360 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362197 A 2011 2011 996 1015 A>A 2011 996 1015 74376 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362198 C 2014 2014 993 1021 C>A 0 0 0 0 0 C>C 2014 993 1021 74484 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362199 T 2017 2017 998 1019 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2017 998 1019 74548 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362200 G 2001 2001 997 1004 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 2001 997 1004 73971 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362201 T 2007 2007 1002 1005 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 2007 1002 1005 74179 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362202 G 1993 1993 1002 991 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1993 1002 991 73526 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362203 G 1993 1993 998 995 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1993 998 995 73631 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362204 A 1998 1998 1005 993 A>A 1998 1005 993 73887 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362205 C 1997 1997 1005 992 C>A 0 0 0 0 0 C>C 1997 1005 992 73697 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362206 C 1997 1997 1007 990 C>A 0 0 0 0 0 C>C 1997 1007 990 73740 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362207 A 1993 1993 1011 982 A>A 1993 1011 982 73692 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362208 C 1994 1994 1009 985 C>A 0 0 0 0 0 C>C 1994 1009 985 73584 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362209 C 1998 1998 1014 984 C>A 0 0 0 0 0 C>C 1998 1014 984 73820 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362210 A 1997 1997 1011 986 A>A 1997 1011 986 73680 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362211 A 1993 1993 997 996 A>A 1993 997 996 73629 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362212 G 1982 1982 992 990 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1982 992 990 73312 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr10 71362213 T 1982 1982 985 997 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1982 985 997 72712 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362214 T 1984 1984 989 995 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1984 989 995 72514 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362215 T 1984 1984 989 995 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1984 989 995 72490 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362216 T 1987 1987 991 996 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1987 991 996 72623 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362217 T 1995 1995 996 999 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1995 996 999 73236 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362218 C 2000 2000 1006 994 C>A 0 0 0 0 0 C>C 2000 1006 994 73964 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362219 A 1995 1995 1003 992 A>A 1995 1003 992 73780 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362220 T 1996 1996 996 1000 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1996 996 1000 73818 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362221 C 1995 1995 996 999 C>A 0 0 0 0 0 C>C 1995 996 999 73090 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362222 C 1988 1988 987 1001 C>A 0 0 0 0 0 C>C 1988 987 1001 72629 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362223 C 1983 1983 980 1003 C>A 0 0 0 0 0 C>C 1983 980 1003 72478 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362224 C 1977 1977 969 1008 C>A 0 0 0 0 0 C>C 1977 969 1008 72305 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362225 C 1962 1962 952 1010 C>A 0 0 0 0 0 C>C 1962 952 1010 72139 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362226 T 1949 1949 939 1010 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1949 939 1010 72079 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362227 C 1930 1930 923 1007 C>A 0 0 0 0 0 C>C 1930 923 1007 71365 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362228 A 1915 1915 908 1007 A>A 1915 908 1007 70826 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362229 C 1891 1891 901 990 C>A 0 0 0 0 0 C>C 1891 901 990 69952 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362230 T 1881 1881 888 993 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1881 888 993 69570 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362231 A 1860 1860 871 989 A>A 1860 871 989 68800 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr10 71362232 C 1848 1848 855 992 C>A 0 0 0 0 0 C>C 1847 855 992 68168 0 C>T 1 0 1 37 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362233 C 1834 1834 842 992 C>A 0 0 0 0 0 C>C 1834 842 992 67805 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362234 T 1831 1831 826 1005 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1831 826 1005 67496 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362235 T 1805 1805 810 995 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1805 810 995 66701 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362236 C 1794 1794 800 994 C>A 0 0 0 0 0 C>C 1794 800 994 66216 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362237 C 1784 1784 781 1003 C>A 0 0 0 0 0 C>C 1784 781 1003 65887 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362238 T 1765 1765 770 995 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1765 770 995 65266 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr10 71362239 C 1749 1749 752 997 C>A 0 0 0 0 0 C>C 1749 752 997 64554 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362240 C 1736 1736 739 997 C>A 0 0 0 0 0 C>C 1736 739 997 64166 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr10 71362241 T 1723 1723 724 999 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1723 724 999 63703 0 T>G 0 0 0 0 0 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0 0 G>T 0 0 0 0 0 G>G 1589 769 820 58556 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr22 19132462 A 1577 1577 757 820 A>A 1577 757 820 58053 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132463 A 1558 1558 741 817 A>A 1558 741 817 57368 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132464 A 1551 1551 735 816 A>A 1551 735 816 57142 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132465 G 1520 1520 717 803 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1520 717 803 56209 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr22 19132466 C 1500 1500 709 791 C>A 0 0 0 0 0 C>C 1500 709 791 55486 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132467 A 1494 1494 695 799 A>A 1494 695 799 55133 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132468 A 1481 1481 688 793 A>A 1481 688 793 54670 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132469 G 1474 1472 682 790 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1472 682 790 54449 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr22 19132470 C 1465 1464 674 790 C>A 0 0 0 0 0 C>C 1464 674 790 54122 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132471 A 1457 1456 665 791 A>A 1456 665 791 53851 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132472 C 1451 1451 647 804 C>A 0 0 0 0 0 C>C 1451 647 804 53492 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132473 C 1435 1435 626 809 C>A 0 0 0 0 0 C>C 1435 626 809 52980 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132474 T 1412 1411 610 801 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1411 610 801 52185 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr22 19132475 A 1387 1387 596 791 A>A 1387 596 791 51088 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132476 G 1372 1370 580 790 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1370 580 790 50661 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr22 19132477 C 1362 1362 568 794 C>A 0 0 0 0 0 C>C 1362 568 794 50334 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132478 A 1350 1350 556 794 A>A 1350 556 794 49932 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132479 T 1347 1347 546 801 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1347 546 801 49804 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 +chr22 19132480 G 1334 1334 535 799 G>A 0 0 0 0 0 G>C 0 0 0 0 0 G>T 0 0 0 0 0 G>G 1334 535 799 49318 0 G>ins 0 0 0 . 0 G>del 0 0 0 . 0 0 0 +chr22 19132481 A 1323 1323 528 795 A>A 1323 528 795 48907 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132482 C 1313 1313 520 793 C>A 0 0 0 0 0 C>C 1313 520 793 48555 0 C>T 0 0 0 0 0 C>G 0 0 0 0 0 C>ins 0 0 0 . 0 C>del 0 0 0 . 0 0 0 +chr22 19132483 A 1303 1303 508 795 A>A 1303 508 795 48090 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132484 A 1274 1274 496 778 A>A 1274 496 778 46696 0 A>C 0 0 0 0 0 A>T 0 0 0 0 0 A>G 0 0 0 0 0 A>ins 0 0 0 . 0 A>del 0 0 0 . 0 0 0 +chr22 19132485 T 1282 1277 484 793 T>A 0 0 0 0 0 T>C 0 0 0 0 0 T>T 1277 484 793 47211 0 T>G 0 0 0 0 0 T>ins 0 0 0 . 0 T>del 0 0 0 . 0 0 0 diff --git a/Test/data_output/mrdCalculation01/mrdCalculation01_bg.mrd b/Test/data_output/mrdCalculation01/mrdCalculation01_bg.mrd new file mode 100644 index 0000000..11e1518 --- /dev/null +++ b/Test/data_output/mrdCalculation01/mrdCalculation01_bg.mrd @@ -0,0 +1,5 @@ +#MRD_log10 MRD_pval SUM_DP SUM_ALT Mean_AF Stddev_AF Median_AF duplication error_rate BG_REF BG_other monitoring_count_pre_filter monitoring_count_post_filter monitoring_count_post_filter_with_counts proportion_Z_statistic minimal_detectable_af +-20.000 0.00000 13457 180 0.01338 0.00394 0.01162 1-fold 0.00009006 7517338 677 6 6 6 82.12400 0.00022293 +-20.000 0.00000 11449 143 0.01249 0.00440 0.01128 2-fold 0.00006145 6932203 426 6 6 6 93.00354 0.00017469 +-20.000 0.00000 10492 136 0.01296 0.00491 0.01207 3-fold 0.00005866 6579876 386 6 6 6 98.82529 0.00019062 +-20.000 0.00000 9750 124 0.01272 0.00457 0.01179 4-fold 0.00005798 6226452 361 6 6 6 97.53076 0.00020513 diff --git a/Test/data_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd b/Test/data_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd new file mode 100644 index 0000000..f69a35c --- /dev/null +++ b/Test/data_output/mrdCalculation01/mrdCalculation01_bg_unfiltered.mrd @@ -0,0 +1,5 @@ +#MRD_log10 MRD_pval SUM_DP SUM_ALT Mean_AF Stddev_AF Median_AF duplication error_rate BG_REF BG_other monitoring_count_pre_filter monitoring_count_post_filter monitoring_count_post_filter_with_counts proportion_Z_statistic minimal_detectable_af +-20.000 0.00000 18453 197 0.01068 0.00578 0.01129 1-fold 0.00107732 7528873 8111 8 8 7 17.16960 0.00151737 +-20.000 0.00000 16142 160 0.00991 0.00579 0.01047 2-fold 0.00101829 6943003 7070 8 8 7 16.36370 0.00142485 +-20.000 0.00000 14994 152 0.01014 0.00629 0.01084 3-fold 0.00101439 6590187 6685 8 8 7 16.81786 0.00146725 +-20.000 0.00000 14037 140 0.00997 0.00598 0.01074 4-fold 0.00101455 6236237 6327 8 8 7 16.51430 0.00149605 diff --git a/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv b/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv new file mode 100644 index 0000000..37b799a --- /dev/null +++ b/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts.tsv @@ -0,0 +1,7 @@ +chr pos REF ALT m_REF_1-fold m_ALT_1-fold m_OTHER_1-fold m_AF_1-fold p_value_1-fold outlier_1-fold fold-change_1-fold z_stats_mean-1-fold z_stats_median-1-fold z_stats_median_wo0-1-fold m_REF_2-fold m_ALT_2-fold m_OTHER_2-fold m_AF_2-fold p_value_2-fold outlier_2-fold fold-change_2-fold z_stats_mean-2-fold z_stats_median-2-fold z_stats_median_wo0-2-fold m_REF_3-fold m_ALT_3-fold m_OTHER_3-fold m_AF_3-fold p_value_3-fold outlier_3-fold fold-change_3-fold z_stats_mean-3-fold z_stats_median-3-fold z_stats_median_wo0-3-fold m_REF_4-fold m_ALT_4-fold m_OTHER_4-fold m_AF_4-fold p_value_4-fold outlier_4-fold fold-change_4-fold z_stats_mean-4-fold z_stats_median-4-fold z_stats_median_wo0-4-fold +chr1 114713909 G T 2504 29 0 0.011448874851954205 3.5191583e-50 0 -0.14602992697764838 -0.041697352293483925 -0.000793391372297312 -0.000793391372297312 1775 20 0 0.011142061281337047 3.829885e-38 0 -0.12810767075739427 -0.03570219750938549 -0.00021755299087738468 -0.00021755299087738468 1484 18 0 0.011984021304926764 2.0500571e-35 0 -0.10787456861606037 -0.030833282075897844 0.0012130644821915812 0.0012130644821915812 1324 15 0 0.011202389843166542 2.0404598e-29 0 -0.14899673293201587 -0.04215213242371618 -0.010179693345230006 -0.010179693345230006 +chr1 114713915 C T 2534 44 0 0.017067494181536073 1.0687688e-82 0 0.2730621516075964 0.0779701049589748 0.12838155699981205 0.12838155699981205 1765 31 0 0.017260579064587972 5.5542938e-64 0 0.3506806420018038 0.09773083430091052 0.14250496146979452 0.14250496146979452 1467 28 0 0.018729096989966554 1.6474266e-59 0 0.3942485002706415 0.11268620002652405 0.15338824501538553 0.15338824501538553 1303 22 0 0.01660377358490566 4.1548757e-46 0 0.26132599956169456 0.07393080319627321 0.11312898757785017 0.11312898757785017 +chr3 179218303 G A 1734 36 0 0.020338983050847456 8.2016624e-71 0 0.5170820771237521 0.14764749925387335 0.20359476882362806 0.20359476882362806 1615 33 0 0.020024271844660196 4.1199532e-70 0 0.5669460595475047 0.15800162531613687 0.2069717484828962 0.2069717484828962 1528 33 0 0.02114029468289558 1.6765537e-71 0 0.573745075520548 0.16399086439126306 0.20778710743831044 0.20778710743831044 1416 31 0 0.021423635107118175 1.3263199e-67 0 0.6274726842996985 0.17751605126089456 0.22316204483746527 0.22316204483746527 +chr7 55181378 C T 2373 22 0 0.00918580375782881 2.0904165e-36 0 -0.31483210295524344 -0.08989708741162718 -0.05282255985625937 -0.05282255985625937 2248 17 0 0.0075055187637969095 9.0979127e-30 0 -0.41267561971659794 -0.11500815209053071 -0.08504471382176473 -0.08504471382176473 2174 16 0 0.0073059360730593605 3.1118005e-28 0 -0.4561248511664425 -0.130372027237456 -0.1043288890777989 -0.1043288890777989 2085 16 0 0.007615421227986673 1.3647109e-28 0 -0.42148519772601967 -0.11924086870609348 -0.09206692624675787 -0.09206692624675787 +chr7 55191822 T G 2403 28 1 0.011517893870835048 1.3771379e-48 0 -0.14088180741517942 -0.04022735939895825 0.0007933913722973519 0.0007933913722973519 2274 22 0 0.009581881533101045 2.4374929e-40 0 -0.25019538149410936 -0.0697266984344352 -0.03661080779000761 -0.03661080779000761 2175 21 0 0.009562841530054645 5.7455622e-39 0 -0.2881142391036171 -0.08235034186771173 -0.05341100299293995 -0.05341100299293995 2070 21 0 0.010043041606886656 1.6737228e-39 0 -0.23706804187200237 -0.06706807121052313 -0.03664655972272296 -0.03664655972272296 +chr12 25245350 C T 1909 21 0 0.010880829015544042 2.28567e-36 0 -0.18840039138327758 -0.05379580510877886 -0.013853057330612937 -0.013853057330612937 1772 20 0 0.011160714285714286 3.7038998e-38 0 -0.1266480295812069 -0.035295411582696036 0.00021755299087738468 0.00021755299087738468 1664 20 0 0.011876484560570071 4.4518516e-39 0 -0.11587991690506905 -0.033121413236721436 -0.0012130644821915812 -0.0012130644821915812 1552 19 0 0.0120942075111394 1.9153135e-37 0 -0.08124871133135658 -0.0229857821168354 0.010179693345230044 0.010179693345230044 diff --git a/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv b/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv new file mode 100644 index 0000000..33054c0 --- /dev/null +++ b/Test/data_output/mrdCalculation01/mrdCalculation01_monitoring_counts_unfiltered.tsv @@ -0,0 +1,9 @@ +chr pos REF ALT m_REF_1-fold m_ALT_1-fold m_OTHER_1-fold m_AF_1-fold p_value_1-fold outlier_1-fold fold-change_1-fold z_stats_mean-1-fold z_stats_median-1-fold z_stats_median_wo0-1-fold m_REF_2-fold m_ALT_2-fold m_OTHER_2-fold m_AF_2-fold p_value_2-fold outlier_2-fold fold-change_2-fold z_stats_mean-2-fold z_stats_median-2-fold z_stats_median_wo0-2-fold m_REF_3-fold m_ALT_3-fold m_OTHER_3-fold m_AF_3-fold p_value_3-fold outlier_3-fold fold-change_3-fold z_stats_mean-3-fold z_stats_median-3-fold z_stats_median_wo0-3-fold m_REF_4-fold m_ALT_4-fold m_OTHER_4-fold m_AF_4-fold p_value_4-fold outlier_4-fold fold-change_4-fold z_stats_mean-4-fold z_stats_median-4-fold z_stats_median_wo0-4-fold +chr1 114713909 G T 2504 29 0 0.011448874851954205 3.2725341e-20 0 0.050621893129207285 0.015028680413008413 0.0076455713808351285 0.0 1775 20 0 0.011142061281337047 1.1770734e-14 0 0.06280272603625559 0.01828388348207656 0.021788646433384965 0.0 1484 18 0 0.011984021304926764 6.7920597e-14 0 0.09310064177317856 0.02772443360045362 0.03472680975350795 0.0026263725616405944 1324 15 0 0.011202389843166542 2.0244068e-11 0 0.0358744484963236 0.010609456120366676 0.01599300806711816 0.0 +chr1 114713915 C T 2534 44 0 0.017067494181536073 6.6419743e-37 0 0.5662222951905567 0.168100665366646 0.15889236307473736 0.13973257345407947 1765 31 0 0.017260579064587972 2.3476197e-27 0 0.6464269958320554 0.18819558667945344 0.1926846227801652 0.1542217131199983 1467 28 0 0.018729096989966554 7.3953546e-26 0 0.7083404158458861 0.2109366428803136 0.21998676934662553 0.16736152249902214 1303 22 0 0.01660377358490566 1.467424e-19 0 0.5353353209461484 0.15831927277830143 0.1650153139662061 0.13578287744768225 +chr3 179218303 G A 1734 36 0 0.020338983050847456 4.0560309e-33 0 0.8664350124813198 0.2572281298920798 0.24695709330846918 0.22109305223370795 1615 33 0 0.020024271844660196 4.7717457e-31 0 0.9100461006297815 0.26494354492872463 0.2698771705024083 0.22388260979122554 1528 33 0 0.02114029468289558 7.5905297e-32 0 0.9282734148384004 0.27643047526411174 0.28621262180871165 0.2262502632665008 1416 31 0 0.021423635107118175 3.4686635e-30 0 0.9810233809091866 0.2901263977305857 0.29799362332127 0.2569471378811878 +chr7 55174771 AGGAATTAAGAGAAGC A 2506 17 0 0.006738010305192232 5.1365806e-09 0 -0.381677131219856 -0.1133127046714011 -0.11916550212453454 -0.11715711417694909 2346 17 0 0.007194244604316547 8.6499009e-10 0 -0.31376586574277743 -0.0913472852529041 -0.08847759930743443 -0.09950760504128318 2235 16 0 0.007107952021323856 2.996611e-09 0 -0.35166112288136064 -0.1047211411811558 -0.09919910014503866 -0.11646198790271603 2108 16 0 0.007532956685499058 1.3349425e-09 0 -0.3034345830324785 -0.08973729294862202 -0.08524538132421111 -0.09224417604323037 +chr7 55181316 GG GGCCAGCGTGG 2490 0 0 0.0 1.0 0 -1.0 -0.2968810426478762 -0.30054501571699865 -0.2847284452595773 2347 0 0 0.0 1.0 0 -1.0 -0.2911320039120821 -0.28941964103816625 -0.28084379899976375 2267 0 0 0.0 1.0 0 -1.0 -0.2977899300415002 -0.29442580563344534 -0.2900596755576607 2179 0 0 0.0 1.0 0 -1.0 -0.2957385148779066 -0.2930770461689637 -0.2816116758084821 +chr7 55181378 C T 2373 22 0 0.00918580375782881 8.2089656e-14 0 -0.15705196722311998 -0.046625751779099944 -0.05327370830048603 -0.056281575480076854 2248 17 0 0.0075055187637969095 4.6124268e-10 0 -0.284074499227454 -0.08270317822040987 -0.07978341825241822 -0.09166171232254983 2174 16 0 0.0073059360730593605 2.0428379e-09 0 -0.33360236876983695 -0.09934342605764848 -0.09376127866796431 -0.11162661852054633 2085 16 0 0.007615421227986673 1.1455882e-09 0 -0.2958091643793357 -0.08748216296081929 -0.08297021317027045 -0.09017113820667598 +chr7 55191822 T G 2403 28 1 0.011517893870835048 1.2282736e-19 0 0.056955519203051086 0.01690901392555294 0.009503484252174862 0.0017164724213864148 2274 22 0 0.009581881533101045 1.1810273e-14 0 -0.08601742919922195 -0.025042426534135135 -0.021788646433384965 -0.03932547098363418 2175 21 0 0.009562841530054645 4.5052667e-14 0 -0.12774285461420765 -0.03804053573886641 -0.03177321014327934 -0.05650616083951149 2070 21 0 0.010043041606886656 1.7820928e-14 0 -0.07132939208454903 -0.021094848482228427 -0.01599300806711816 -0.029144316903374254 +chr12 25245350 C T 1909 21 0 0.010880829015544042 1.1998693e-14 0 -0.0015056215611591872 -0.0004469904989100509 -0.0076455713808351285 -0.014127048284542542 1772 20 0 0.011160714285714286 1.1414563e-14 0 0.06458197167136093 0.018801878829276607 0.022309642450357433 0.0004701626099326456 1664 20 0 0.011876484560570071 3.3881159e-15 0 0.08329187380794023 0.024803481274291998 0.031773210143279294 0.0 1552 19 0 0.0120942075111394 1.1923061e-14 0 0.11833998914470478 0.034997692640322556 0.04059794851892759 0.022418990189548578 diff --git a/calculateMRD.py b/calculateMRD.py new file mode 100644 index 0000000..f0dee16 --- /dev/null +++ b/calculateMRD.py @@ -0,0 +1,370 @@ +""" +Alternative MRD calculation +Calculates the MRD based on the difference between monitoring AF and background AF +""" +import argparse +import scipy +from scipy import stats +import numpy as np +import pandas as pd +import os +from functools import cmp_to_key + + +def parse_args(): + parser = argparse.ArgumentParser(description="Script to calculate MRD based on background noise.") + parser.add_argument("folder", type=str, help="umiVar folder containing dedup TSV files.") + parser.add_argument("panel", type=str, help="VCF containing the cfDNA panel.(commas seperated if multiple)") + parser.add_argument("output", type=str, help="Output TSV containing MRD value.") + parser.add_argument("variants", type=str, help="Output TSV containing read counts and p-values for each monitoring variants.") + parser.add_argument("--max_af", type=float, help="Maximum allele frequency for variants to include in the computation. (>1 to disable)", default=0.2, required=False) + parser.add_argument("--keep_gonosomes", action="store_true", help="Do not remove gonosomes") + parser.add_argument("--blacklist", type=str, help="VCF of variants which should be excluded for the background error rate", default="") + parser.add_argument("--remove_off_target", action="store_true", help="Remove tumor off-target variants") + parser.add_argument("--keep_indels", action="store_true", help="Do not remove InDels.") + + args = parser.parse_args() + return args + + +def parse_table(file_path): + table = pd.read_csv(file_path, delimiter='\t') + + # set index + table["index"] = table["CHROM"] + ":" + table["POS"].astype(str) + table = table.set_index("index") + + # cleanup + table = table[["REF", "DP", "DP_HQ", "A", "C", "T", "G", "INS", "DEL"]] + + return table + + +def parse_panel(file_paths): + monitoring_snps = [] + id_snps = [] + off_target = [] + for file_path in file_paths.split(','): + with open(file_path, "r") as vcf_file: + for line in vcf_file: + if line.startswith('#'): + continue + if line.strip() == "": + continue + split_line = line.split("\t") + if split_line[2] == "ID": + id_snps.append(split_line[0] + ":" + split_line[1] + " " + split_line[3] + ">" + split_line[4]) + elif split_line[2] == "M" or split_line[2] == ".": + if "off-target" in split_line[6]: + off_target.append(split_line[0] + ":" + split_line[1] + " " + split_line[3] + ">" + split_line[4]) + else: + monitoring_snps.append(split_line[0] + ":" + split_line[1] + " " + split_line[3] + ">" + split_line[4]) + else: + raise ValueError("Invalid variant type '" + split_line[2] + "'!") + + return set(monitoring_snps), set(id_snps), set(off_target) + + +def parse_blacklist_positions(file_path): + blacklist_pos = [] + with open(file_path, "r") as vcf_file: + for line in vcf_file: + if line.startswith('#'): + continue + if line.strip() == "": + continue + split_line = line.split("\t") + blacklist_pos.append(split_line[0] + ":" + split_line[1]) + + return set(blacklist_pos) + + +def get_alt_count(row, include_indel=False): + if include_indel: + alt = {"A", "C", "G", "T", "INS", "DEL"} + else: + alt = {"A", "C", "G", "T"} + alt.remove(row["REF"]) + return row[list(alt)].sum() + + +def chr_compare(line1, line2): + chr_order = ["chr1", "chr2", "chr3", "chr4", "chr5", "chr6", "chr7", "chr8", "chr9", "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17", "chr18", "chr19", + "chr20", "chr21", "chr22", "chrX", "chrY", "chrMT"] + chr_pos1 = chr_order.index(line1["chr"]) + chr_pos2 = chr_order.index(line2["chr"]) + if chr_pos1 == chr_pos2: + return int(line1["pos"]) - int(line2["pos"]) + else: + return chr_pos1 - chr_pos2 + + +def main(): + args = parse_args() + + # parse dedup files + if not os.path.exists(args.folder): + raise FileNotFoundError("umiVar folder '" + args.folder + "'not found!") + dedup_tables = {} + dedup_tables["1-fold"] = parse_table(os.path.join(args.folder, "dedup_DP1.tsv")) + dedup_tables["2-fold"] = parse_table(os.path.join(args.folder, "dedup_DP2.tsv")) + dedup_tables["3-fold"] = parse_table(os.path.join(args.folder, "dedup_DP3.tsv")) + dedup_tables["4-fold"] = parse_table(os.path.join(args.folder, "dedup_DP4.tsv")) + + # parse cfDNA panel + monitoring_snps, id_snps, off_target_snps = parse_panel(args.panel) + + # parse blacklist + blacklist = set() + if args.blacklist != "": + blacklist = parse_blacklist_positions(args.blacklist) + + # output file buffer + output = [["#MRD_log10", "MRD_pval", "SUM_DP", "SUM_ALT", "Mean_AF", "Stddev_AF", "Median_AF", "duplication", "error_rate", "BG_REF", "BG_other", "monitoring_count_pre_filter", + "monitoring_count_post_filter", "monitoring_count_post_filter_with_counts", "proportion_Z_statistic", "minimal_detectable_af"]] + + monitoring_variant_counts = [] + for snp in monitoring_snps: + snp_line = {} + tmp1 = snp.split(' ') + snp_line["chr"] = tmp1[0].split(':')[0] + snp_line["pos"] = tmp1[0].split(':')[1] + snp_line["REF"] = tmp1[1].split('>')[0] + snp_line["ALT"] = tmp1[1].split('>')[1] + + # ignore indels + if not args.keep_indels: + if len(snp_line["ALT"]) != 1 or len(snp_line["REF"]) != 1: + continue + monitoring_variant_counts.append(snp_line) + + if not args.remove_off_target: + for snp in off_target_snps: + snp_line = {} + tmp1 = snp.split(' ') + snp_line["chr"] = tmp1[0].split(':')[0] + snp_line["pos"] = tmp1[0].split(':')[1] + snp_line["REF"] = tmp1[1].split('>')[0] + snp_line["ALT"] = tmp1[1].split('>')[1] + # ignore indels + if len(snp_line["ALT"]) != 1 or len(snp_line["REF"]) != 1: + continue + monitoring_variant_counts.append(snp_line) + + # sort table + monitoring_variant_counts = sorted(monitoring_variant_counts, key=cmp_to_key(chr_compare)) + + # calculate MRD for 2-fold to 4-fold + dup_levels = ["1-fold", "2-fold", "3-fold", "4-fold"] + combined_tables = {} + for dup_level in dup_levels: + combined_tables[dup_level] = dedup_tables[dup_level][["A", "C", "G", "T", "DEL", "INS", "DP", "DP_HQ"]] + included_levels = [dup_level] + print(dup_level) + for idx in range(dup_levels.index(dup_level) + 1, len(dup_levels)): + combined_tables[dup_level] = combined_tables[dup_level].add(dedup_tables[dup_levels[idx]][["A", "C", "G", "T", "DEL", "INS", "DP", "DP_HQ"]], fill_value=0) + included_levels.append(dup_levels[idx]) + print(" - " + dup_levels[idx]) + + # get combined ref column + ref_column = pd.concat([dedup_tables[dedup]["REF"] for dedup in included_levels]) + ref_column = ref_column[~ref_column.index.duplicated(keep='first')] + combined_tables[dup_level]["REF"] = ref_column + + # use alias to simplify code + combined = combined_tables[dup_level] + + # calculate ALT count and AF + combined["ALT_count"] = combined.apply(get_alt_count, args=(args.keep_indels,), axis=1) + combined["AF"] = combined["ALT_count"] / combined["DP_HQ"] + + # get monitoring variant count (pre-filter) + n_mon_var_count_pre_filter = 0 + for snp in monitoring_variant_counts: + idx_string = snp["chr"] + ":" + snp["pos"] + if idx_string in combined.index: + n_mon_var_count_pre_filter += 1 + + # filter highAF variants + if args.max_af < 1.0: + combined = combined[combined["AF"] < args.max_af] + + # remove gonosomes + if not args.keep_gonosomes: + combined = combined[~combined.index.str.startswith("chrX:", "chrY:")] + + # filter table for monitoring SNPs + monitoring_indices = list(set([snp.split(' ')[0] for snp in monitoring_snps]) & set(combined.index)) + # monitoring_table = combined.loc[monitoring_indices, ] + + # filter table for background data + panel_indices = list(set(monitoring_indices + [snp.split(' ')[0] for snp in id_snps] + [snp.split(' ')[0] for snp in off_target_snps]) & set(combined.index)) + background_table = combined.loc[~combined.index.isin(panel_indices), ] # remove panel variants + background_table = background_table.loc[~background_table.index.isin(blacklist), ] # remove blacklist variants + + # get monitoring counts for fisher test + alt_counts_bg = int(background_table["ALT_count"].sum()) + ref_counts_bg = int(background_table["DP_HQ"].sum() - alt_counts_bg) + + # calculate p-value and AF for each monitoring variant: + + # first run calculate single variant values to determine distribution + mon_afs = [] + monitoring_variant_counts_filtered = [] + for snp in monitoring_variant_counts: + idx_string = snp["chr"] + ":" + snp["pos"] + if idx_string in combined.index: + snp["m_REF_" + dup_level] = int(combined.loc[idx_string, snp["REF"][0]]) + if len(snp["ALT"]) > 1: + snp["m_ALT_" + dup_level] = int(combined.loc[idx_string, "INS"]) + elif len(snp["REF"]) > 1: + snp["m_ALT_" + dup_level] = int(combined.loc[idx_string, "DEL"]) + else: + snp["m_ALT_" + dup_level] = int(combined.loc[idx_string, snp["ALT"]]) + snp["m_OTHER_" + dup_level] = max(0, int(get_alt_count(combined.loc[idx_string, :]) - snp["m_ALT_" + dup_level])) + if snp["m_REF_" + dup_level] > 0: + snp["m_AF_" + dup_level] = snp["m_ALT_" + dup_level] / (snp["m_REF_" + dup_level] + snp["m_ALT_" + dup_level]) + else: + snp["m_AF_" + dup_level] = np.nan + mon_afs.append(snp["m_AF_" + dup_level]) + # perform Fisher Exact Test for each variant + contingency_table = np.array([[snp["m_ALT_" + dup_level], alt_counts_bg], [snp["m_REF_" + dup_level], ref_counts_bg]]) + res = scipy.stats.fisher_exact(contingency_table, alternative="greater") + snp["p_value_" + dup_level] = res[1] + + monitoring_variant_counts_filtered.append(snp) + # apply filter to list + monitoring_variant_counts = monitoring_variant_counts_filtered + + # get statistics for outlier detection + if len(mon_afs) > 0: + mon_af_mean = np.mean(mon_afs) + mon_af_median = np.median(mon_afs) + mon_af_median_wo0 = np.median([af for af in mon_afs if af > 0.0]) + mon_af_std = np.std(mon_afs) + mon_af_upper_limit = mon_af_mean + 3 * mon_af_std + else: + mon_af_mean = np.nan + mon_af_median = np.nan + mon_af_median_wo0 = np.nan + mon_af_std = np.nan + mon_af_upper_limit = np.nan + + # second run: remove outliers and sum up stats + n_mon_var_count_post_filter = 0 + n_mon_var_count_post_filter_with_counts = 0 + alt_counts_mon = 0 + ref_counts_mon = 0 + alt_counts_mon_raw = 0 + ref_counts_mon_raw = 0 + n_monitoring = len(monitoring_variant_counts) + n_background = background_table.shape[0] + monitoring_variant_counts_filtered = [] + for snp in monitoring_variant_counts: + ref_counts_mon_raw += snp["m_REF_" + dup_level] + alt_counts_mon_raw += snp["m_ALT_" + dup_level] + if snp["m_AF_" + dup_level] <= mon_af_upper_limit: + snp["outlier_" + dup_level] = "0" + # aggregate data + ref_counts_mon += snp["m_REF_" + dup_level] + alt_counts_mon += snp["m_ALT_" + dup_level] + # count variants + n_mon_var_count_post_filter += 1 + if snp["m_ALT_" + dup_level] > 0: + n_mon_var_count_post_filter_with_counts += 1 + else: + snp["outlier_" + dup_level] = "1" + + # compute fold-change + snp["fold-change_" + dup_level] = snp["m_AF_" + dup_level] / mon_af_mean - 1 + + # perform Proportion Z Test for each variant + # based on mean + p_0 = mon_af_mean + p = snp["m_AF_" + dup_level] + n = len(mon_afs) + snp["z_stats_mean-" + dup_level] = (p - p_0) / np.sqrt((p_0 * (1 - p_0)) / n) + # based on median + p_0 = mon_af_median + if p_0 > 0.0: + snp["z_stats_median-" + dup_level] = (p - p_0) / np.sqrt((p_0 * (1 - p_0)) / n) + else: + snp["z_stats_median-" + dup_level] = np.nan + # based on median of >0 + p_0 = mon_af_median_wo0 + n = len([af for af in mon_afs if af > 0.0]) + if p_0 > 0.0 and n > 0: + snp["z_stats_median_wo0-" + dup_level] = (p - p_0) / np.sqrt((p_0 * (1 - p_0)) / n) + else: + snp["z_stats_median_wo0-" + dup_level] = np.nan + + # print info + print("Background AF: " + str(alt_counts_bg/ref_counts_bg)) + # print("Monitoring AF: " + str(alt_counts_mon/ref_counts_mon)) + + # perform Proportion Z Test + p_0 = alt_counts_bg/ref_counts_bg + p = alt_counts_mon_raw/ref_counts_mon_raw + n = n_monitoring + n_background + + z = (p-p_0)/np.sqrt((p_0*(1-p_0))/n) + print("proportion Z statistic: " + str(z)) + + + # perform Fisher Exact Test + contingency_table = np.array([[alt_counts_mon, alt_counts_bg], [ref_counts_mon, ref_counts_bg]]) + res = scipy.stats.fisher_exact(contingency_table, alternative="greater") + print("fisher statistic: " + str(res[0])) + print("fisher pvalue: " + str(res[1])) + + # dertermine minimal detectable AF: + for i in range(alt_counts_bg): + table = np.array([[i+1, alt_counts_bg], [ref_counts_mon, ref_counts_bg]]) + p_value = scipy.stats.fisher_exact(table, alternative="greater")[1] + if p_value <= 0.05: + break + min_detectable_af = np.nan + if p_value <= 0.05: + min_detectable_af = i / ref_counts_mon + print("minimal detectable AF: " + str(min_detectable_af)) + + # store output + output.append(["{:.3f}".format(np.log10(max(res[1], 1e-20))), + "{:.5f}".format(res[1]), + str(ref_counts_mon), + str(alt_counts_mon), + "{:.5f}".format(alt_counts_mon/ref_counts_mon), + "{:.5f}".format(mon_af_std), + "{:.5f}".format(np.median([(snp["m_ALT_" + dup_level] / snp["m_REF_" + dup_level]) for snp in monitoring_variant_counts if ("m_ALT_" + dup_level) in snp.keys()])), + dup_level, + "{:.8f}".format(alt_counts_bg/(ref_counts_bg + alt_counts_bg)), + str(ref_counts_bg + alt_counts_bg), + str(alt_counts_bg), + str(n_mon_var_count_pre_filter), + str(n_mon_var_count_post_filter), + str(n_mon_var_count_post_filter_with_counts), + "{:.5f}".format(z), + "{:.8f}".format(min_detectable_af) + ]) + + # write output files + with open(args.output, 'w') as mrd_file: + for line in output: + mrd_file.write("\t".join(line)) + mrd_file.write("\n") + + # format p-value to precision of 8 + monitoring_variant_counts_df = pd.DataFrame(monitoring_variant_counts) + monitoring_variant_counts_df["p_value_1-fold"] = monitoring_variant_counts_df["p_value_1-fold"].map(lambda x: '{0:.8}'.format(x)) + monitoring_variant_counts_df["p_value_2-fold"] = monitoring_variant_counts_df["p_value_2-fold"].map(lambda x: '{0:.8}'.format(x)) + monitoring_variant_counts_df["p_value_3-fold"] = monitoring_variant_counts_df["p_value_3-fold"].map(lambda x: '{0:.8}'.format(x)) + monitoring_variant_counts_df["p_value_4-fold"] = monitoring_variant_counts_df["p_value_4-fold"].map(lambda x: '{0:.8}'.format(x)) + + monitoring_variant_counts_df.to_csv(args.variants, sep='\t', index=False) + + print("finished") + +if __name__ == '__main__': + main() + +