diff --git a/trtools/mergeSTR/tests/test_mergeSTR.py b/trtools/mergeSTR/tests/test_mergeSTR.py
index 1e8e1406..9dff3940 100644
--- a/trtools/mergeSTR/tests/test_mergeSTR.py
+++ b/trtools/mergeSTR/tests/test_mergeSTR.py
@@ -1,9 +1,11 @@
-import argparse
 import os
+import shutil
+import argparse
+import subprocess
 
 import cyvcf2
-import numpy as np
 import pytest
+import numpy as np
 
 from ..mergeSTR import *
 from trtools.testsupport.utils import assert_same_vcf
@@ -372,6 +374,39 @@ def test_popstr_output(args, mrgvcfdir):
     assert main(args) == 0
     assert_same_vcf(args.out + '.vcf', mrgvcfdir + "/popstr_merged.vcf")
 
+def test_mergeSTR_recursion(args, mrgvcfdir, tmpdir):
+    # Test that mergeSTR will accept its own output as input
+    # Create a merged VCF and then merge it again with a different file
+
+    if shutil.which("bgzip") is not None and shutil.which("tabix") is not None:
+        # First, merge two files of 10 and 19 samples, respectively
+        fname1 = os.path.join(mrgvcfdir, "CEU_test_subset10.vcf.gz")
+        fname2 = os.path.join(mrgvcfdir, "CEU_test_subset19.vcf.gz")
+        args.vcftype = "hipstr"
+        merged = str(tmpdir / "test-CEU-subset1")
+        args.out = merged
+        args.vcfs = fname1 + "," + fname2
+        args.vcfs_list = None
+        assert main(args)==0
+        subprocess.run(["bgzip", merged + ".vcf"])
+        subprocess.run(["tabix", "-p", "vcf", merged + ".vcf.gz"])
+    else:
+        merged = str(mrgvcfdir / "test-CEU-subset1")
+
+    # Now, merge the output of mergeSTR with another file of 150 samples
+    fname1 = merged + ".vcf.gz"
+    fname2 = os.path.join(mrgvcfdir, "CEU_test_subset150.vcf.gz")
+    args.vcftype = "hipstr"
+    merged = str(tmpdir / "test-CEU-subset2")
+    args.out = merged
+    args.vcfs = fname1 + "," + fname2
+    args.vcfs_list = None
+    assert main(args)==0
+
+    # The subsetted files were created by subsetting CEU_test.vcf.gz, so they should end up the same
+    # { zcat CEU_test.vcf.gz | head -n-3 && zcat CEU_test.vcf.gz | cut -f -9,10-19; } | bgzip > CEU_test_subset10.vcf.gz
+    assert_same_vcf(args.out + '.vcf', mrgvcfdir + "/CEU_test.vcf")
+
 
 # TODO questions and issues to confirm, test or  address:
 # confirm conflicting samples cause this to fail unless --update-sample-from-file is given
diff --git a/trtools/testsupport/sample_vcfs/mergeSTR_vcfs/CEU_test.vcf b/trtools/testsupport/sample_vcfs/mergeSTR_vcfs/CEU_test.vcf
new file mode 100644
index 00000000..cf1c8b35
--- /dev/null
+++ b/trtools/testsupport/sample_vcfs/mergeSTR_vcfs/CEU_test.vcf
@@ -0,0 +1,3420 @@
+##fileformat=VCFv4.1
+##FILTER=<ID=PASS,Description="All filters passed">
+##command=HipSTR-v0.6.2 --bams /projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA06985.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA06986.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA06994.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07000.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07037.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07051.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07347.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07357.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA10847.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA10851.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11829.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11830.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11831.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11832.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11840.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11881.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11894.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11918.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11919.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11920.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11931.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11992.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11994.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11995.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12003.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12004.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12005.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12006.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12043.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12044.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12045.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12144.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12154.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12155.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12156.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12234.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12249.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12287.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12414.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12489.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12716.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12717.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12749.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12750.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12751.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12760.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12761.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12762.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12763.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12776.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12812.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12813.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12814.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12815.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12828.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12872.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12873.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12874.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12878.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07056.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA06984.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA06989.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11843.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11892.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11893.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11930.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12058.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12272.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12273.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12275.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12282.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12283.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12286.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12340.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12341.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12342.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12347.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12348.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12383.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12399.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12400.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12413.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12718.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12748.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12775.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12777.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12778.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12827.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12829.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12842.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12843.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12889.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12890.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA07048.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11932.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA11933.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12046.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12830.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/cram/NA12546.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA06991.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA06993.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA06995.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA06997.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07014.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07019.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07022.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07029.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07031.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07034.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07045.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07055.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07345.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07346.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07348.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07349.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA07435.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10830.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10831.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10835.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10836.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10837.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10838.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10839.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10840.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10842.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10843.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10845.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10846.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10852.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10854.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10855.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10856.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10857.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10859.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10860.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10861.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10863.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10864.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA10865.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA11839.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA11882.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA11891.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA11917.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA11993.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12056.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12057.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12145.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12146.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12236.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12239.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12248.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12264.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12274.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12329.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12335.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12336.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12343.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12344.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12376.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12386.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12485.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12707.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12739.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12740.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12752.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12753.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12766.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12767.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12801.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12802.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12817.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12818.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12832.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12864.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12865.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12875.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12877.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12891.final.cram,/projects/ps-gymreklab/resources/datasets/1000Genomes/additional_698_related/NA12892.final.cram --fasta /projects/ps-gymreklab/resources/dbase/human/hg38_full_plus_hla/GRCh38_full_analysis_set_plus_decoy_hla.fa --regions /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs//EUR/CEU/splits/regions/00.txt --str-vcf /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs//EUR/CEU/splits/00/running_out/CEU_00.vcf.gz --max-reads 2000000
+##reference=/projects/ps-gymreklab/resources/dbase/human/hg38_full_plus_hla/GRCh38_full_analysis_set_plus_decoy_hla.fa
+##bcftools_concatVersion=1.9+htslib-1.9
+##bcftools_concatCommand=concat -a -f /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs//EUR/CEU/hipstr_outs_concat/file_list.txt -O z -o /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs//EUR/CEU/hipstr_outs_concat/CEU.vcf.gz; Date=Wed Feb 10 11:16:18 2021
+##command-DumpSTR=/projects/ps-gymreklab/mousavi/envs/trtools_venv/bin/dumpSTR --vcf /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs/EUR/CEU/merged/CEU.vcf.gz --out /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs/EUR/CEU/merged/CEU_filtered --vcftype hipstr --min-locus-callrate 0.75 --min-locus-hwep 0.000001 --filter-regions /projects/ps-gymreklab/mousavi/analysis/1000genomes/additional_runtime_files/segdup/hg38_segdup.sorted.bed.gz --filter-regions-names SEGDUP
+##INFO=<ID=INFRAME_PGEOM,Number=1,Type=Float,Description="Parameter for in-frame geometric step size distribution">
+##INFO=<ID=INFRAME_UP,Number=1,Type=Float,Description="Probability that stutter causes an in-frame increase in obs. STR size">
+##INFO=<ID=INFRAME_DOWN,Number=1,Type=Float,Description="Probability that stutter causes an in-frame decrease in obs. STR size">
+##INFO=<ID=OUTFRAME_PGEOM,Number=1,Type=Float,Description="Parameter for out-of-frame geometric step size distribution">
+##INFO=<ID=OUTFRAME_UP,Number=1,Type=Float,Description="Probability that stutter causes an out-of-frame increase in read's STR size">
+##INFO=<ID=OUTFRAME_DOWN,Number=1,Type=Float,Description="Probability that stutter causes an out-of-frame decrease in read's STR size">
+##INFO=<ID=BPDIFFS,Number=A,Type=Integer,Description="Base pair difference of each alternate allele from the reference allele">
+##INFO=<ID=START,Number=1,Type=Integer,Description="Inclusive start coodinate for the repetitive portion of the reference allele">
+##INFO=<ID=END,Number=1,Type=Integer,Description="Inclusive end coordinate for the repetitive portion of the reference allele">
+##INFO=<ID=PERIOD,Number=1,Type=Integer,Description="Length of STR motif">
+##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
+##INFO=<ID=REFAC,Number=1,Type=Integer,Description="Reference allele count">
+##INFO=<ID=AC,Number=A,Type=Integer,Description="Alternate allele counts">
+##INFO=<ID=NSKIP,Number=1,Type=Integer,Description="Number of samples not genotyped due to various issues">
+##INFO=<ID=NFILT,Number=1,Type=Integer,Description="Number of samples whose genotypes were filtered due to various issues">
+##INFO=<ID=DP,Number=1,Type=Integer,Description="Total number of valid reads used to genotype all samples">
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+##bcftools_viewVersion=1.15.1+htslib-1.15.1
+##bcftools_viewCommand=view -Oz -r chr1:987287-2211901,chr2:69464-1933967 /projects/ps-gymreklab/mousavi/results/1000genomes/hipstr_outs/EUR/CEU/merged/CEU_filtered.vcf.gz; Date=Thu Sep 28 16:00:32 2023
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	NA06984	NA06985	NA06986	NA06989	NA06991	NA06993	NA06994	NA06995	NA06997	NA07000	NA07014	NA07019	NA07022	NA07029	NA07031	NA07034	NA07037	NA07045	NA07048	NA07051	NA07055	NA07056	NA07345	NA07346	NA07347	NA07348	NA07349	NA07357	NA07435	NA10830	NA10831	NA10835	NA10836	NA10837	NA10838	NA10839	NA10840	NA10842	NA10843	NA10845	NA10846	NA10847	NA10851	NA10852	NA10854	NA10855	NA10856	NA10857	NA10859	NA10860	NA10861	NA10863	NA10864	NA10865	NA11829	NA11830	NA11831	NA11832	NA11839	NA11840	NA11843	NA11881	NA11882	NA11891	NA11892	NA11893	NA11894	NA11917	NA11918	NA11919	NA11920	NA11930	NA11931	NA11932	NA11933	NA11992	NA11993	NA11994	NA11995	NA12003	NA12004	NA12005	NA12006	NA12043	NA12044	NA12045	NA12046	NA12056	NA12057	NA12058	NA12144	NA12145	NA12146	NA12154	NA12155	NA12156	NA12234	NA12236	NA12239	NA12248	NA12249	NA12264	NA12272	NA12273	NA12274	NA12275	NA12282	NA12283	NA12286	NA12287	NA12329	NA12335	NA12336	NA12340	NA12341	NA12342	NA12343	NA12344	NA12347	NA12348	NA12376	NA12383	NA12386	NA12399	NA12400	NA12413	NA12414	NA12485	NA12489	NA12546	NA12707	NA12716	NA12717	NA12718	NA12739	NA12740	NA12748	NA12749	NA12750	NA12751	NA12752	NA12753	NA12760	NA12761	NA12762	NA12763	NA12766	NA12767	NA12775	NA12776	NA12777	NA12778	NA12801	NA12802	NA12812	NA12813	NA12814	NA12815	NA12817	NA12818	NA12827	NA12828	NA12829	NA12830	NA12832	NA12842	NA12843	NA12864	NA12865	NA12872	NA12873	NA12874	NA12875	NA12877	NA12878	NA12889	NA12890	NA12891	NA12892
+chr1	987287	Human_STR_285	TTTTTTTTTTTTTTTTGAGA	TTTTTTTTTTTTTTTTTGAGA,TTTTTTTTTTTTTTTTTTTGAGA,TTTTTTTTTTTTTTTTTTTTAGA,TTTTTTTTTTTTTTTTTTTTTGT,TTTTTTTTTTTTTTTTTTTTGAGA,TTTTTTTTTTTTTTTTTTTTTAGA,TTTTTTTTTTTTTTTTTTTTTGAGA,TTTTTTTTTTTTTTTTTTTTTGAGT,TTTTTTTTTTTTTTTTTTTTTGATA,TTTTTTTTTTTTTTTTTTTTTGTGA,TTTTTTTTTTTTTTTTTTTTTGTGT,TTTTTTTTTTTTTTTTTTTTTTAGA,TTTTTTTTTTTTTTTTTTTTTTATA,TTTTTTTTTTTTTTTTTTTTTTTGA	.	PASS	INFRAME_PGEOM=0.31;INFRAME_UP=0.01;INFRAME_DOWN=0.07;OUTFRAME_PGEOM=0.95;OUTFRAME_UP=0;OUTFRAME_DOWN=0;BPDIFFS=1,3,3,3,4,4,5,5,5,5,5,5,5,5;START=987287;END=987302;PERIOD=1;AN=270;REFAC=2;AC=7,69,7,1,24,4,178,0,0,7,15,54,12,19;NSKIP=0;NFILT=44;DP=4202;DSNP=0;DSTUTTER=204;DFLANKINDEL=375;HET=0.457064;HWEP=0.342779;HRUN=16	GT:GB:Q:PQ:DP:DSNP:DSTUTTER:DFLANKINDEL:PDP:PSNP:GLDIFF:AB:DAB:FS:ALLREADS:MALLREADS:FILTER	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	5|6:4|4:0.99:0.49:35:0:1:4:24.29|10.71:0|0:1.87:-1.62:29:-0.26:-15|2;-5|3;-4|1;0|1;2|1;4|21;6|1:2|1;4|21:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:0.83:0.41:30:0:1:3:23.00|7.00:0|0:0.69:-3.07:22:-0.56:-5|3;0|3;5|13;16|1;20|1:0|1;5|14:PASS	7|12:5|5:1:0.5:41:0:2:5:28.25|12.75:0|0:3.27:-2.04:34:-0.53:-5|2;-3|1;0|3;5|25;6|1:1|1;5|23;6|1:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:1:0.5:26:0:0:0:19.96|6.04:0|0:4.15:-2.18:24:-0.93:0|2;5|16:5|18:PASS	7|12:5|5:1:0.5:43:0:0:4:33.62|9.38:0|0:4.72:-4.38:37:-0.52:-15|1;-5|1;-4|1;-3|1;0|3;5|28;6|1:5|27:PASS	7|14:5|5:1:0.5:36:0:1:4:23.09|12.91:0|0:3.6:-1.19:24:-1.19:-13|2;-5|1;-4|2;0|2;4|1;5|19:4|1;5|17:PASS	2|7:3|5:1:0.5:32:0:5:1:15.58|16.42:0|0:6.08:-0:25:0:-17|1;-15|1;0|4;3|9;4|4;5|7:3|11;4|4;5|7:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	2|7:3|5:0.98:0.49:21:0:5:2:10.96|10.04:0|0:1.77:-0.24:13:-0.64:-5|2;0|1;2|4;3|4;5|4;6|1;12|1:2|4;3|4;5|4;6|1:PASS	5|7:4|5:1:0.5:19:0:1:2:9.27|9.73:0|0:8.22:-0:17:-0.33:0|1;3|1;4|9;5|8:3|1;4|8;5|8:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:1:0.5:27:0:0:1:17.90|9.10:0|0:4.46:-0.82:24:-1.18:-15|3;5|16:5|16:PASS	7|12:5|5:1:0.5:26:0:2:1:17.51|8.49:0|0:3.95:-1.03:23:-1.24:0|2;5|17;7|1:5|17;7|1;8|1:PASS	7|12:5|5:1:0.5:43:0:3:6:29.25|13.75:0|0:7.52:-2.15:32:-0.53:-15|1;-6|1;0|4;4|1;5|22:1|1;4|1;5|21;6|1:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:0.94:0.47:28:0:0:4:19.52|8.48:0|0:1.23:-1.19:24:-1.27:-15|1;0|4;5|17;14|1:5|18:PASS	1|5:1|4:1:0.5:29:0:1:2:16.23|12.77:0|0:7.56:-0.17:23:0:0|1;1|13;2|1;4|10:1|13;2|1;4|9:PASS	7|11:5|5:0.99:0.49:29:0:3:4:23.25|5.75:0|0:2.04:-3.31:23:-0.6:-15|1;-13|2;-5|2;-4|1;0|2;4|1;5|11;6|1;10|1:0|1;4|1;5|14;6|1:PASS	7|12:5|5:0.99:0.5:27:0:1:2:19.79|7.21:0|0:2.16:-2.14:21:-0.55:-15|1;-11|1;0|3;5|12:5|12:PASS	7|12:5|5:1:0.5:20:0:0:3:12.05|7.95:0|0:5.94:-0.37:14:-0.3:-15|1;5|13;14|1:5|11:PASS	7|14:5|5:0.8:0.4:30:0:2:4:22.66|7.34:0|0:0.6:-2.03:26:-0.84:-15|1;-5|2;0|1;4|1;5|14;7|1;20|1:3|1;4|1;5|14:PASS	7|12:5|5:1:0.5:22:0:0:1:15.43|6.57:0|0:5.54:-1.31:17:-0.28:-15|3;-13|1;0|1;5|15;7|1:5|17:PASS	7|11:5|5:0.72:0.36:42:0:0:6:30.87|11.13:0|0:0.47:-4.06:26:-0.28:-5|2;0|3;5|26:5|24:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	2|7:3|5:1:0.5:48:0:2:5:20.01|27.99:0|0:12.37:-0.7:30:0:-15|2;-5|1;-3|2;0|1;2|1;3|12;4|1;5|15:3|11;4|1;5|13:PASS	2|3:3|3:0.89:0.44:21:0:0:1:16.43|4.57:0|0:0.93:-2.12:18:-0:-17|1;0|1;3|15:3|15:PASS	7|13:5|5:0.98:0.49:28:0:0:0:20.99|7.01:0|0:1.77:-2.36:22:-0.27:-15|2;5|17:5|17:PASS	2|7:3|5:1:0.5:28:0:2:3:12.38|15.62:0|0:10.15:-0.28:22:-0.44:-17|1;-15|1;-13|1;-5|3;0|2;3|9;5|7;14|1:3|8;5|9:PASS	7|11:5|5:1:0.5:34:0:1:2:24.53|9.47:0|0:3.01:-2.09:29:0:-15|1;-5|1;0|2;5|23;7|1:5|24;6|1:PASS	2|7:3|5:1:0.5:37:0:1:1:19.86|17.14:0|0:13.2:-0.15:29:-1.03:-15|2;-5|2;0|1;3|14;4|2;5|9:3|14;4|1;5|10:PASS	7|12:5|5:1:0.5:29:0:1:4:21.27|7.73:0|0:3.07:-1.72:27:-0.26:-15|2;-5|2;0|3;5|18:1|1;5|19:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:0.99:0.5:30:0:0:3:22.46|7.54:0|0:2.07:-2.59:23:-0.27:-15|4;-13|1;0|1;5|18:5|17:PASS	5|7:4|5:1:0.5:27:0:0:3:16.88|10.12:0|0:2.6:-0.93:15:-0.29:-5|2;0|1;4|10;5|5;14|1:4|11;5|4:PASS	2|5:3|4:1:0.5:31:0:1:2:14.79|16.21:0|0:9.97:-0:23:-0.5:-15|2;-5|1;-4|1;0|3;3|11;4|9:3|12;4|8:PASS	2|7:3|5:1:0.5:28:0:1:2:14.79|13.21:0|0:9.99:-0.08:20:0:-15|1;-5|1;0|3;3|9;4|1;5|7:3|9;4|1;5|6:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	2|7:3|5:0.96:0.48:28:0:0:4:10.71|17.29:0|0:1.33:-0.62:18:0:-15|2;0|6;3|4;4|2;5|9:3|6;5|11:PASS	7|14:5|5:0.55:0.28:24:0:7:3:15.22|8.78:0|0:0.15:-0.68:16:-0:-19|1;-5|1;-1|1;0|1;3|6;4|1;5|7;11|1:3|5;5|9;11|1:PASS	7|12:5|5:1:0.5:33:0:0:2:19.84|13.16:0|0:13.46:-0.64:25:0:-15|2;-5|1;0|1;5|21;7|1:5|21:PASS	7|12:5|5:1:0.5:26:0:0:1:17.48|8.52:0|0:11.89:-0.97:25:-1.58:0|3;5|23:5|23:PASS	7|7:5|5:0.96:0.96:28:0:0:4:14.00|14.00:0|0:1.61:0:.:0:-15|2;0|3;5|13;6|1:5|14:PASS	7|7:5|5:0.99:0.99:32:0:0:2:16.00|16.00:0|0:2.23:0:.:0:-15|1;-5|4;-4|1;0|1;5|15:5|14:PASS	7|13:5|5:0.54:0.27:36:0:1:5:23.48|12.52:0|0:0.07:-1.28:27:-0.2:-15|2;-5|3;0|3;4|1;5|19;14|1:5|21:PASS	7|12:5|5:1:0.5:32:0:0:3:23.03|8.97:0|0:3.47:-2.03:26:-0.53:-15|1;0|1;5|19;7|1;8|1;14|1:5|21:PASS	2|12:3|5:0.75:0.37:35:0:10:1:23.94|11.06:0|0:0.47:-1.7:32:-0.52:-15|2;0|2;3|13;4|3;5|7:3|12;4|3;5|8:PASS	.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:.:NOCALL	7|12:5|5:1:0.5:34:0:1:5:23.19|10.81:0|0:2.65:-1.3:32:-1.45:-15|2;-5|1;-4|1;0|3;5|23;13|1;16|1:1|1;5|26:PASS	7|12:5|5:1:0.5:36:0:1:4:26.47|9.53:0|0:3.12:-2.28:30:-1.2:-15|4;-13|2;-5|2;-4|1;0|1;3|1;5|15;6|1:3|1;5|14:PASS	2|7:3|5:1:0.5:32:0:0:3:16.47|15.53:0|0:15.59:-0:23:0:-1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+chr1	1052515	Human_STR_351	GTGTGTGTGTGTGTG	GTGTGTGTGTGTGTGTG	.	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