/test-data/picard_output_gc_summary_alignment_stats.txt
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1## net.sf.picard.metrics.StringHeader 2# net.sf.picard.analysis.CollectGcBiasMetrics REFERENCE_SEQUENCE=testdata/picard/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta INPUT=testdata/picard/sam/summary_alignment_stats_test.sam OUTPUT=output_test_gc_nodict/test_nodic_ref_gc_summary_alignment_stats_test.txt CHART_OUTPUT=output_test_gc_nodict/test_nodic_ref_gc_summary_alignment_stats_test.pdf WINDOW_SIZE=100 MINIMUM_GENOME_FRACTION=1.0E-5 TMP_DIR=/tmp/raphael VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false 3## net.sf.picard.metrics.StringHeader 4# Started on: Tue Oct 26 13:54:53 EDT 2010 5 6## METRICS CLASS net.sf.picard.analysis.GcBiasDetailMetrics 7GC WINDOWS READ_STARTS MEAN_BASE_QUALITY NORMALIZED_COVERAGE ERROR_BAR_WIDTH 86 3 0 0 0 0 97 7 0 0 0 0 108 6 0 0 0 0 119 45 0 0 0 0 1210 54 0 0 0 0 1311 83 0 0 0 0 1412 110 0 0 0 0 1513 83 0 0 0 0 1614 130 0 0 0 0 1715 178 0 0 0 0 1816 276 0 0 0 0 1917 352 0 0 0 0 2018 519 0 0 0 0 2119 658 0 0 0 0 2220 1073 0 0 0 0 2321 1543 0 0 0 0 2422 2024 0 0 0 0 2523 2631 0 0 0 0 2624 3758 0 0 0 0 2725 5087 0 0 0 0 2826 6543 0 0 0 0 2927 8020 0 0 0 0 3028 10251 0 0 0 0 3129 12241 0 0 0 0 3230 14189 0 0 0 0 3331 16295 0 0 0 0 3432 17995 0 0 0 0 3533 20131 0 0 0 0 3634 22194 0 0 0 0 3735 23848 0 0 0 0 3836 25355 0 0 0 0 3937 27310 0 0 0 0 4038 28274 0 0 0 0 4139 28818 0 0 0 0 4240 28806 0 0 0 0 4341 29651 0 0 0 0 4442 30773 0 0 0 0 4543 31217 0 0 0 0 4644 31743 0 0 0 0 4745 32727 0 0 0 0 4846 34084 0 0 0 0 4947 35307 0 0 0 0 5048 36752 0 0 0 0 5149 36917 0 0 0 0 5250 36561 0 0 0 0 5351 36399 0 0 0 0 5452 35677 0 0 0 0 5553 34354 1 1 29.352448 29.352448 5654 32401 0 0 0 0 5755 30417 0 0 0 0 5856 28588 0 0 0 0 5957 27083 0 0 0 0 6058 24090 0 0 0 0 6159 20995 0 0 0 0 6260 17702 0 0 0 0 6361 14252 0 0 0 0 6462 11595 0 0 0 0 6563 9077 0 0 0 0 6664 6863 0 0 0 0 6765 5394 0 0 0 0 6866 4304 0 0 0 0 6967 3551 0 0 0 0 7068 2776 0 0 0 0 7169 2321 0 0 0 0 7270 1999 0 0 0 0 7371 1777 0 0 0 0 7472 1444 0 0 0 0 7573 1367 0 0 0 0 7674 1182 0 0 0 0 7775 975 0 0 0 0 7876 807 0 0 0 0 7977 852 0 0 0 0 8078 867 0 0 0 0 8179 925 0 0 0 0 8280 786 0 0 0 0 8381 762 0 0 0 0 8482 578 0 0 0 0 8583 475 0 0 0 0 8684 391 0 0 0 0 8785 219 0 0 0 0 8886 184 0 0 0 0 8987 75 0 0 0 0 9088 36 0 0 0 0 9189 37 0 0 0 0 9290 24 0 0 0 0 9391 40 0 0 0 0 9492 33 0 0 0 0 9593 11 0 0 0 0 9694 24 0 0 0 0 9795 12 0 0 0 0 9896 11 0 0 0 0 9997 11 0 0 0 0 10098 9 0 0 0 0 101 102