From 8010baee6f241de358eb61b2e3cf2ba55e142c2f Mon Sep 17 00:00:00 2001 From: emmarousseau Date: Sat, 13 Apr 2024 08:27:33 +0100 Subject: [PATCH] Samtools stats (#39) * Add tests and reference outputs, update changelog * final touches, fix script * update changelog * Minor changes, paths, config and script --------- Co-authored-by: Robrecht Cannoodt --- CHANGELOG.md | 5 +- src/samtools/samtools_stats/config.vsh.yaml | 166 ++ src/samtools/samtools_stats/help.txt | 36 + src/samtools/samtools_stats/script.sh | 36 + src/samtools/samtools_stats/test.sh | 78 + .../test_data/ref.d.paired_end.sorted.txt | 1539 +++++++++++++++++ .../test_data/ref.p.paired_end.sorted.txt | 1535 ++++++++++++++++ .../test_data/ref.paired_end.sorted.txt | 1539 +++++++++++++++++ .../samtools_stats/test_data/script.sh | 6 + .../test_data/test.paired_end.sorted.bam | Bin 0 -> 19725 bytes .../test_data/test.paired_end.sorted.bam.bai | Bin 0 -> 128 bytes 11 files changed, 4938 insertions(+), 2 deletions(-) create mode 100644 src/samtools/samtools_stats/config.vsh.yaml create mode 100644 src/samtools/samtools_stats/help.txt create mode 100644 src/samtools/samtools_stats/script.sh create mode 100644 src/samtools/samtools_stats/test.sh create mode 100644 src/samtools/samtools_stats/test_data/ref.d.paired_end.sorted.txt create mode 100644 src/samtools/samtools_stats/test_data/ref.p.paired_end.sorted.txt create mode 100644 src/samtools/samtools_stats/test_data/ref.paired_end.sorted.txt create mode 100755 src/samtools/samtools_stats/test_data/script.sh create mode 100644 src/samtools/samtools_stats/test_data/test.paired_end.sorted.bam create mode 100644 src/samtools/samtools_stats/test_data/test.paired_end.sorted.bam.bai diff --git a/CHANGELOG.md b/CHANGELOG.md index dd8d0a48..43787a4b 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -36,9 +36,10 @@ - `salmon/salmon_quant`: Transcript quantification from RNA-seq data (PR #24). * `samtools`: - - `samtools/samtools_flagstat`: Counts the number of alignments in SAM/BAM/CRAM files for each FLAG type (PR #31). - - `samtools/samtools_idxstats`: Reports alignment summary statistics for a SAM/BAM/CRAM file (PR #32). + - `samtools/flagstat`: Counts the number of alignments in SAM/BAM/CRAM files for each FLAG type (PR #31). + - `samtools/idxstats`: Reports alignment summary statistics for a SAM/BAM/CRAM file (PR #32). - `samtools/samtools_index`: Index SAM/BAM/CRAM files (PR #35). + - `samtools/samtools_stats`: Reports alignment summary statistics for a BAM file (PR #39). ## MAJOR CHANGES diff --git a/src/samtools/samtools_stats/config.vsh.yaml b/src/samtools/samtools_stats/config.vsh.yaml new file mode 100644 index 00000000..554a11e8 --- /dev/null +++ b/src/samtools/samtools_stats/config.vsh.yaml @@ -0,0 +1,166 @@ +name: samtools_stats +namespace: samtools +description: Reports alignment summary statistics for a BAM file. +keywords: [statistics, counts, bam, sam, cram] +links: + homepage: https://www.htslib.org/ + documentation: https://www.htslib.org/doc/samtools-idxstats.html + repository: https://github.com/samtools/samtools +references: + doi: 10.1093/bioinformatics/btp352, 10.1093/gigascience/giab008 +license: MIT/Expat + +argument_groups: + - name: Inputs + arguments: + - name: --input + type: file + description: | + Input file. + required: true + must_exist: true + - name: --bai + type: file + description: | + Index file. + - name: --fasta + type: file + description: | + Reference file the CRAM was created with. + - name: --coverage + alternatives: -c + type: integer + description: | + Coverage distribution min,max,step [1,1000,1]. + multiple: true + multiple_sep: ',' + - name: --remove_dups + alternatives: -d + type: boolean_true + description: | + Exclude from statistics reads marked as duplicates. + - name: --customized_index_file + alternatives: -X + type: boolean_true + description: | + Use a customized index file. + - name: --required_flag + alternatives: -f + type: string + description: | + Required flag, 0 for unset. See also `samtools flags`. + default: "0" + - name: --filtering_flag + alternatives: -F + type: string + description: | + Filtering flag, 0 for unset. See also `samtools flags`. + default: "0" + - name: --GC_depth + type: double + description: | + The size of GC-depth bins (decreasing bin size increases memory requirement). + default: 20000.0 + - name: --insert_size + alternatives: -i + type: integer + description: | + Maximum insert size. + default: 8000 + - name: --id + alternatives: -I + type: string + description: | + Include only listed read group or sample name. + - name: --read_length + alternatives: -l + type: integer + description: | + Include in the statistics only reads with the given read length. + default: -1 + - name: --most_inserts + alternatives: -m + type: double + description: | + Report only the main part of inserts. + default: 0.99 + - name: --split_prefix + alternatives: -P + type: string + description: | + Path or string prefix for filepaths output by --split (default is input filename). + - name: --trim_quality + alternatives: -q + type: integer + description: | + The BWA trimming parameter. + default: 0 + - name: --ref_seq + alternatives: -r + type: file + description: | + Reference sequence (required for GC-depth and mismatches-per-cycle calculation). + - name: --split + alternatives: -S + type: string + description: | + Also write statistics to separate files split by tagged field. + - name: --target_regions + alternatives: -t + type: file + description: | + Do stats in these regions only. Tab-delimited file chr,from,to, 1-based, inclusive. + - name: --sparse + alternatives: -x + type: boolean_true + description: | + Suppress outputting IS rows where there are no insertions. + - name: --remove_overlaps + alternatives: -p + type: boolean_true + description: | + Remove overlaps of paired-end reads from coverage and base count computations. + - name: --cov_threshold + alternatives: -g + type: integer + description: | + Only bases with coverage above this value will be included in the target percentage computation. + default: 0 + - name: --input_fmt_option + type: string + description: | + Specify a single input file format option in the form of OPTION or OPTION=VALUE. + - name: --reference + type: file + description: | + Reference sequence FASTA FILE. + - name: Outputs + arguments: + - name: --output + alternatives: -o + type: file + description: | + Output file. + default: "out.txt" + required: true + direction: output + +resources: + - type: bash_script + path: script.sh +test_resources: + - type: bash_script + path: test.sh + - type: file + path: test_data +engines: + - type: docker + image: quay.io/biocontainers/samtools:1.19.2--h50ea8bc_1 + setup: + - type: docker + run: | + samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \ + sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt +runners: +- type: executable +- type: nextflow diff --git a/src/samtools/samtools_stats/help.txt b/src/samtools/samtools_stats/help.txt new file mode 100644 index 00000000..2298a362 --- /dev/null +++ b/src/samtools/samtools_stats/help.txt @@ -0,0 +1,36 @@ +``` +samtools stats -h +``` + +Usage: samtools stats [OPTIONS] file.bam + samtools stats [OPTIONS] file.bam chr:from-to +Options: + -c, --coverage ,, Coverage distribution min,max,step [1,1000,1] + -d, --remove-dups Exclude from statistics reads marked as duplicates + -X, --customized-index-file Use a customized index file + -f, --required-flag Required flag, 0 for unset. See also `samtools flags` [0] + -F, --filtering-flag Filtering flag, 0 for unset. See also `samtools flags` [0] + --GC-depth the size of GC-depth bins (decreasing bin size increases memory requirement) [2e4] + -h, --help This help message + -i, --insert-size Maximum insert size [8000] + -I, --id Include only listed read group or sample name + -l, --read-length Include in the statistics only reads with the given read length [-1] + -m, --most-inserts Report only the main part of inserts [0.99] + -P, --split-prefix Path or string prefix for filepaths output by -S (default is input filename) + -q, --trim-quality The BWA trimming parameter [0] + -r, --ref-seq Reference sequence (required for GC-depth and mismatches-per-cycle calculation). + -s, --sam Ignored (input format is auto-detected). + -S, --split Also write statistics to separate files split by tagged field. + -t, --target-regions Do stats in these regions only. Tab-delimited file chr,from,to, 1-based, inclusive. + -x, --sparse Suppress outputting IS rows where there are no insertions. + -p, --remove-overlaps Remove overlaps of paired-end reads from coverage and base count computations. + -g, --cov-threshold Only bases with coverage above this value will be included in the target percentage computation [0] + --input-fmt-option OPT[=VAL] + Specify a single input file format option in the form + of OPTION or OPTION=VALUE + --reference FILE + Reference sequence FASTA FILE [null] + -@, --threads INT + Number of additional threads to use [0] + --verbosity INT + Set level of verbosity diff --git a/src/samtools/samtools_stats/script.sh b/src/samtools/samtools_stats/script.sh new file mode 100644 index 00000000..6e32e9a5 --- /dev/null +++ b/src/samtools/samtools_stats/script.sh @@ -0,0 +1,36 @@ +#!/bin/bash + +## VIASH START +## VIASH END + +set -e + +[[ "$par_remove_dups" == "false" ]] && unset par_remove_dups +[[ "$par_customized_index_file" == "false" ]] && unset par_customized_index_file +[[ "$par_sparse" == "false" ]] && unset par_sparse +[[ "$par_remove_overlaps" == "false" ]] && unset par_remove_overlaps + +samtools stats \ + ${par_coverage:+-c "$par_coverage"} \ + ${par_remove_dups:+-d} \ + ${par_required_flag:+-f "$par_required_flag"} \ + ${par_filtering_flag:+-F "$par_filtering_flag"} \ + ${par_GC_depth:+--GC-depth "$par_GC_depth"} \ + ${par_insert_size:+-i "$par_insert_size"} \ + ${par_id:+-I "$par_id"} \ + ${par_read_length:+-l "$par_read_length"} \ + ${par_most_inserts:+-m "$par_most_inserts"} \ + ${par_split_prefix:+-P "$par_split_prefix"} \ + ${par_trim_quality:+-q "$par_trim_quality"} \ + ${par_ref_seq:+-r "$par_ref_seq"} \ + ${par_split:+-S "$par_split"} \ + ${par_target_regions:+-t "$par_target_regions"} \ + ${par_sparse:+-x} \ + ${par_remove_overlaps:+-p} \ + ${par_cov_threshold:+-g "$par_cov_threshold"} \ + ${par_input_fmt_option:+-O "$par_input_fmt_option"} \ + ${par_reference:+-R "$par_reference"} \ + "$par_input" \ + > "$par_output" + +exit 0 \ No newline at end of file diff --git a/src/samtools/samtools_stats/test.sh b/src/samtools/samtools_stats/test.sh new file mode 100644 index 00000000..05d70d30 --- /dev/null +++ b/src/samtools/samtools_stats/test.sh @@ -0,0 +1,78 @@ +#!/bin/bash + +test_dir="${meta_resources_dir}/test_data" + +############################################################################################ + +echo ">>> Test 1: $meta_functionality_name" +"$meta_executable" \ + --input "$test_dir/test.paired_end.sorted.bam" \ + --bai "$test_dir/test.paired_end.sorted.bam.bai" \ + --output "$test_dir/test.paired_end.sorted.txt" + +echo ">>> Checking whether output exists" +[ ! -f "$test_dir/test.paired_end.sorted.txt" ] && echo "File 'test.paired_end.sorted.txt' does not exist!" && exit 1 + +echo ">>> Checking whether output is non-empty" +[ ! -s "$test_dir/test.paired_end.sorted.txt" ] && echo "File 'test.paired_end.sorted.txt' is empty!" && exit 1 + +echo ">>> Checking whether output is correct" +# compare using diff, ignoring the line stating the command that was passed. +diff <(grep -v "^# The command" "$test_dir/test.paired_end.sorted.txt") \ + <(grep -v "^# The command" "$test_dir/ref.paired_end.sorted.txt") || \ + (echo "Output file ref.paired_end.sorted.txt does not match expected output" && exit 1) + +rm "$test_dir/test.paired_end.sorted.txt" + +############################################################################################ + +echo ">>> Test 2: $meta_functionality_name with --remove_dups" +"$meta_executable" \ + --remove_dups \ + --input "$test_dir/test.paired_end.sorted.bam" \ + --bai "$test_dir/test.paired_end.sorted.bam.bai" \ + --output "$test_dir/test.d.paired_end.sorted.txt" + +echo ">>> Checking whether output exists" +[ ! -f "$test_dir/ref.d.paired_end.sorted.txt" ] && echo "File 'ref.d.paired_end.sorted.txt' does not exist!" && exit 1 + +echo ">>> Checking whether output is non-empty" +[ ! -s "$test_dir/ref.d.paired_end.sorted.txt" ] && echo "File 'ref.d.paired_end.sorted.txt' is empty!" && exit 1 + +echo ">>> Checking whether output is correct" +# compare using diff, ignoring the line stating the command that was passed. +diff <(grep -v "^# The command" "$test_dir/test.d.paired_end.sorted.txt") \ + <(grep -v "^# The command" "$test_dir/ref.d.paired_end.sorted.txt") || \ + (echo "Output file ref.d.paired_end.sorted.txt does not match expected output" && exit 1) + +rm "$test_dir/test.d.paired_end.sorted.txt" + +############################################################################################ + +echo ">>> Test 3: $meta_functionality_name with --remove_overlaps" +"$meta_executable" \ + --remove_overlaps \ + --input "$test_dir/test.paired_end.sorted.bam" \ + --bai "$test_dir/test.paired_end.sorted.bam.bai" \ + --output "$test_dir/test.p.paired_end.sorted.txt" + +echo ">>> Checking whether output exists" +[ ! -f "$test_dir/ref.p.paired_end.sorted.txt" ] && echo "File 'ref.p.paired_end.sorted.txt' does not exist!" && exit 1 + +echo ">>> Checking whether output is non-empty" +[ ! -s "$test_dir/ref.p.paired_end.sorted.txt" ] && echo "File 'ref.p.paired_end.sorted.txt' is empty!" && exit 1 + + +echo ">>> Checking whether output is correct" +# compare using diff, ignoring the line stating the command that was passed. +diff <(grep -v "^# The command" "$test_dir/test.p.paired_end.sorted.txt") \ + <(grep -v "^# The command" "$test_dir/ref.p.paired_end.sorted.txt") || \ + (echo "Output file ref.p.paired_end.sorted.txt does not match expected output" && exit 1) + +rm "$test_dir/test.p.paired_end.sorted.txt" + +############################################################################################ + +echo ">>> All tests passed successfully." + +exit 0 diff --git a/src/samtools/samtools_stats/test_data/ref.d.paired_end.sorted.txt b/src/samtools/samtools_stats/test_data/ref.d.paired_end.sorted.txt new file mode 100644 index 00000000..315c597d --- /dev/null +++ b/src/samtools/samtools_stats/test_data/ref.d.paired_end.sorted.txt @@ -0,0 +1,1539 @@ +# This file was produced by samtools stats (1.19.2+htslib-1.19.1) and can be plotted using plot-bamstats +# This file contains statistics for all reads. +# The command line was: stats -d test_data/test.paired_end.sorted.bam +# CHK, Checksum [2]Read Names [3]Sequences [4]Qualities +# CHK, CRC32 of reads which passed filtering followed by addition (32bit overflow) +CHK 696e2242 1799722a a8072f55 +# Summary Numbers. Use `grep ^SN | cut -f 2-` to extract this part. +SN raw total sequences: 200 # excluding supplementary and secondary reads +SN filtered sequences: 0 +SN sequences: 200 +SN is sorted: 1 +SN 1st fragments: 100 +SN last fragments: 100 +SN reads mapped: 197 +SN reads mapped and paired: 194 # paired-end technology bit set + both mates mapped +SN reads unmapped: 3 +SN reads properly paired: 192 # proper-pair bit set +SN reads paired: 200 # paired-end technology bit set +SN reads duplicated: 0 # PCR or optical duplicate bit set +SN reads MQ0: 0 # mapped and MQ=0 +SN reads QC failed: 0 +SN non-primary alignments: 0 +SN supplementary alignments: 0 +SN total length: 27645 # ignores clipping +SN total first fragment length: 13897 # ignores clipping +SN total last fragment length: 13748 # ignores clipping +SN bases mapped: 27423 # ignores clipping +SN bases mapped (cigar): 27401 # more accurate +SN bases trimmed: 0 +SN bases duplicated: 0 +SN mismatches: 140 # from NM fields +SN error rate: 5.109303e-03 # mismatches / bases mapped (cigar) +SN average length: 138 +SN average first fragment length: 139 +SN average last fragment length: 137 +SN maximum length: 151 +SN maximum first fragment length: 151 +SN maximum last fragment length: 151 +SN average quality: 33.3 +SN insert size average: 207.7 +SN insert size standard deviation: 66.4 +SN inward oriented pairs: 88 +SN outward oriented pairs: 9 +SN pairs with other orientation: 0 +SN pairs on different chromosomes: 0 +SN percentage of properly paired reads (%): 96.0 +# First Fragment Qualities. Use `grep ^FFQ | cut -f 2-` to extract this part. +# Columns correspond to qualities and rows to cycles. 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9 0 0 0 78 0 +LFQ 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 9 0 0 0 74 0 +LFQ 84 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 12 0 0 0 72 0 +LFQ 85 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 14 0 0 0 66 0 +LFQ 86 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 12 0 0 0 72 0 +LFQ 87 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 4 0 0 0 78 0 +LFQ 88 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 8 0 0 0 70 0 +LFQ 89 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 10 0 0 0 73 0 +LFQ 90 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 11 0 0 0 72 0 +LFQ 91 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 11 0 0 0 72 0 +LFQ 92 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 14 0 0 0 68 0 +LFQ 93 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 9 0 0 0 68 0 +LFQ 94 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 15 0 0 0 68 0 +LFQ 95 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 19 0 0 0 64 0 +LFQ 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 13 0 0 0 66 0 +LFQ 97 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 12 0 0 0 70 0 +LFQ 98 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 2 0 0 0 0 0 4 0 0 0 0 13 0 0 0 67 0 +LFQ 99 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 12 0 0 0 62 0 +LFQ 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 15 0 0 0 59 0 +LFQ 101 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 11 0 0 0 63 0 +LFQ 102 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 15 0 0 0 60 0 +LFQ 103 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 14 0 0 0 64 0 +LFQ 104 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 21 0 0 0 57 0 +LFQ 105 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 19 0 0 0 55 0 +LFQ 106 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 19 0 0 0 55 0 +LFQ 107 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 17 0 0 0 60 0 +LFQ 108 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 13 0 0 0 58 0 +LFQ 109 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 19 0 0 0 55 0 +LFQ 110 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 16 0 0 0 48 0 +LFQ 111 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 14 0 0 0 55 0 +LFQ 112 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 22 0 0 0 43 0 +LFQ 113 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 18 0 0 0 47 0 +LFQ 114 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 13 0 0 0 50 0 +LFQ 115 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 11 0 0 0 0 19 0 0 0 44 0 +LFQ 116 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 18 0 0 0 49 0 +LFQ 117 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 25 0 0 0 39 0 +LFQ 118 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 2 0 0 0 0 0 8 0 0 0 0 32 0 0 0 35 0 +LFQ 119 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 25 0 0 0 41 0 +LFQ 120 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 21 0 0 0 46 0 +LFQ 121 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 28 0 0 0 35 0 +LFQ 122 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 21 0 0 0 40 0 +LFQ 123 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 12 0 0 0 0 19 0 0 0 42 0 +LFQ 124 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 15 0 0 0 0 23 0 0 0 35 0 +LFQ 125 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 30 0 0 0 32 0 +LFQ 126 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 27 0 0 0 41 0 +LFQ 127 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 26 0 0 0 41 0 +LFQ 128 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 24 0 0 0 38 0 +LFQ 129 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 3 0 0 0 0 0 8 0 0 0 0 20 0 0 0 41 0 +LFQ 130 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 4 0 0 0 0 0 10 0 0 0 0 31 0 0 0 30 0 +LFQ 131 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 23 0 0 0 36 0 +LFQ 132 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 3 0 0 0 0 0 9 0 0 0 0 21 0 0 0 35 0 +LFQ 133 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 26 0 0 0 36 0 +LFQ 134 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 4 0 0 0 0 0 3 0 0 0 0 28 0 0 0 35 0 +LFQ 135 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 23 0 0 0 35 0 +LFQ 136 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 26 0 0 0 41 0 +LFQ 137 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 4 0 0 0 0 0 7 0 0 0 0 24 0 0 0 38 0 +LFQ 138 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 20 0 0 0 36 0 +LFQ 139 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 25 0 0 0 38 0 +LFQ 140 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 3 0 0 0 0 0 8 0 0 0 0 19 0 0 0 36 0 +LFQ 141 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 6 0 0 0 0 22 0 0 0 38 0 +LFQ 142 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 20 0 0 0 35 0 +LFQ 143 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 3 0 0 0 0 0 9 0 0 0 0 17 0 0 0 35 0 +LFQ 144 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 22 0 0 0 38 0 +LFQ 145 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 20 0 0 0 38 0 +LFQ 146 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 3 0 0 0 0 0 7 0 0 0 0 23 0 0 0 35 0 +LFQ 147 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 31 0 0 0 28 0 +LFQ 148 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 23 0 0 0 28 0 +LFQ 149 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 19 0 0 0 29 0 +LFQ 150 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 23 0 0 0 30 0 +LFQ 151 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 4 0 +# GC Content of first fragments. Use `grep ^GCF | cut -f 2-` to extract this part. +GCF 15.08 0 +GCF 30.40 1 +GCF 31.16 2 +GCF 32.16 0 +GCF 33.17 2 +GCF 33.92 5 +GCF 34.42 4 +GCF 34.92 2 +GCF 35.43 3 +GCF 35.93 7 +GCF 36.43 9 +GCF 36.93 4 +GCF 37.44 7 +GCF 37.94 8 +GCF 38.44 10 +GCF 38.94 7 +GCF 39.70 6 +GCF 40.45 8 +GCF 40.95 9 +GCF 41.71 4 +GCF 42.46 5 +GCF 42.96 7 +GCF 43.72 2 +GCF 44.72 1 +GCF 45.48 3 +GCF 46.48 2 +GCF 47.74 1 +GCF 48.74 2 +GCF 50.25 0 +GCF 52.01 1 +GCF 54.77 0 +GCF 57.54 1 +# GC Content of last fragments. Use `grep ^GCL | cut -f 2-` to extract this part. +GCL 15.08 0 +GCL 30.65 1 +GCL 31.66 0 +GCL 32.41 2 +GCL 32.91 1 +GCL 33.42 3 +GCL 33.92 4 +GCL 34.42 3 +GCL 34.92 4 +GCL 35.68 5 +GCL 36.43 10 +GCL 36.93 8 +GCL 37.44 7 +GCL 37.94 9 +GCL 38.44 10 +GCL 38.94 13 +GCL 39.45 8 +GCL 39.95 7 +GCL 40.45 2 +GCL 40.95 4 +GCL 41.46 3 +GCL 41.96 1 +GCL 42.46 4 +GCL 42.96 6 +GCL 43.47 4 +GCL 44.22 2 +GCL 44.97 4 +GCL 45.48 7 +GCL 45.98 3 +GCL 46.48 2 +GCL 46.98 3 +GCL 47.49 1 +GCL 48.49 0 +GCL 49.75 2 +# ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +GCC 1 19.50 26.50 31.50 22.50 0.00 0.00 +GCC 2 30.50 20.50 17.00 32.00 0.00 0.00 +GCC 3 32.00 15.00 16.50 36.50 0.00 0.00 +GCC 4 30.50 21.00 17.50 31.00 0.00 0.00 +GCC 5 39.50 9.50 12.50 38.50 0.00 0.00 +GCC 6 28.00 17.50 18.50 36.00 0.00 0.00 +GCC 7 29.50 19.50 21.00 30.00 0.00 0.00 +GCC 8 29.50 21.00 23.00 26.50 0.00 0.00 +GCC 9 22.00 32.50 27.00 18.50 0.00 0.00 +GCC 10 36.00 12.00 16.00 36.00 0.00 0.00 +GCC 11 28.00 18.50 20.50 33.00 0.00 0.00 +GCC 12 33.50 21.00 16.00 29.50 0.00 0.00 +GCC 13 28.00 19.00 27.50 25.50 0.00 0.00 +GCC 14 24.50 21.50 19.00 35.00 0.00 0.00 +GCC 15 29.50 16.50 20.00 34.00 0.00 0.00 +GCC 16 31.00 20.00 21.50 27.50 0.00 0.00 +GCC 17 27.50 16.50 19.50 36.50 0.00 0.00 +GCC 18 30.50 24.00 19.50 26.00 0.00 0.00 +GCC 19 23.50 21.50 17.50 37.50 0.00 0.00 +GCC 20 31.50 17.00 21.50 30.00 0.00 0.00 +GCC 21 26.00 22.00 17.50 34.50 0.00 0.00 +GCC 22 30.50 19.00 23.00 27.50 0.00 0.00 +GCC 23 31.50 15.50 22.50 30.50 0.00 0.00 +GCC 24 32.00 18.00 21.00 29.00 0.00 0.00 +GCC 25 27.50 16.50 22.00 34.00 0.00 0.00 +GCC 26 27.50 18.50 23.50 30.50 0.00 0.00 +GCC 27 28.50 19.00 19.50 33.00 0.00 0.00 +GCC 28 22.50 21.00 22.50 34.00 0.00 0.00 +GCC 29 27.00 18.50 22.00 32.50 0.00 0.00 +GCC 30 30.50 20.00 21.50 28.00 0.00 0.00 +GCC 31 24.50 21.00 24.00 30.50 0.00 0.00 +GCC 32 32.50 17.50 16.50 33.50 0.00 0.00 +GCC 33 28.50 16.00 25.00 30.50 0.00 0.00 +GCC 34 29.00 21.00 23.50 26.50 0.00 0.00 +GCC 35 32.50 18.50 21.00 28.00 0.00 0.00 +GCC 36 35.00 12.50 20.00 32.50 0.00 0.00 +GCC 37 26.50 20.00 18.50 35.00 0.00 0.00 +GCC 38 27.00 21.00 19.50 32.50 0.00 0.00 +GCC 39 31.00 20.00 19.00 30.00 0.00 0.00 +GCC 40 27.50 20.00 21.50 31.00 0.00 0.00 +GCC 41 37.00 16.50 19.00 27.50 0.00 0.00 +GCC 42 26.50 19.50 18.50 35.50 0.00 0.00 +GCC 43 33.50 20.00 17.50 29.00 0.00 0.00 +GCC 44 31.50 16.00 21.00 31.50 0.00 0.00 +GCC 45 28.50 19.00 20.00 32.50 0.00 0.00 +GCC 46 24.50 23.50 17.50 34.50 0.00 0.00 +GCC 47 22.50 24.50 19.50 33.50 0.00 0.00 +GCC 48 27.50 17.50 22.50 32.50 0.00 0.00 +GCC 49 28.50 17.00 20.00 34.50 0.00 0.00 +GCC 50 32.00 16.50 20.00 31.50 0.00 0.00 +GCC 51 27.50 20.50 21.00 31.00 0.00 0.00 +GCC 52 27.50 21.50 19.50 31.50 0.00 0.00 +GCC 53 26.00 19.00 25.50 29.50 0.00 0.00 +GCC 54 30.65 23.62 16.58 29.15 0.00 0.00 +GCC 55 29.65 21.61 20.10 28.64 0.00 0.00 +GCC 56 32.16 16.58 22.11 29.15 0.00 0.00 +GCC 57 28.64 20.60 21.11 29.65 0.00 0.00 +GCC 58 29.65 14.57 24.62 31.16 0.00 0.00 +GCC 59 31.16 21.61 17.59 29.65 0.00 0.00 +GCC 60 28.64 17.59 22.11 31.66 0.00 0.00 +GCC 61 25.13 21.61 22.61 30.65 0.00 0.00 +GCC 62 27.14 26.13 21.61 25.13 0.00 0.00 +GCC 63 29.15 14.57 18.59 37.69 0.00 0.00 +GCC 64 29.15 15.08 21.61 34.17 0.00 0.00 +GCC 65 28.64 20.10 19.10 32.16 0.00 0.00 +GCC 66 31.66 19.10 16.08 33.17 0.00 0.00 +GCC 67 24.75 20.20 24.24 30.81 0.00 0.00 +GCC 68 26.77 19.70 23.23 30.30 0.00 0.00 +GCC 69 30.96 17.26 22.84 28.93 0.00 0.00 +GCC 70 33.67 16.84 21.94 27.55 0.00 0.00 +GCC 71 35.20 20.41 18.88 25.51 0.00 0.00 +GCC 72 33.67 15.82 18.88 31.63 0.00 0.00 +GCC 73 32.31 18.46 18.46 30.77 0.00 0.00 +GCC 74 27.69 18.46 24.10 29.74 0.00 0.00 +GCC 75 32.31 14.87 21.54 31.28 0.00 0.00 +GCC 76 24.62 20.00 21.03 34.36 0.00 0.00 +GCC 77 29.74 17.44 17.95 34.87 0.00 0.00 +GCC 78 24.48 20.83 17.19 37.50 0.00 0.00 +GCC 79 33.33 20.83 19.79 26.04 0.00 0.00 +GCC 80 31.05 16.32 22.11 30.53 0.00 0.00 +GCC 81 33.33 15.87 15.34 35.45 0.00 0.00 +GCC 82 31.75 19.58 19.58 29.10 0.00 0.00 +GCC 83 30.32 21.81 18.62 29.26 0.00 0.00 +GCC 84 27.66 21.81 15.96 34.57 0.00 0.00 +GCC 85 26.06 15.43 22.34 36.17 0.00 0.00 +GCC 86 25.00 18.09 21.81 35.11 0.00 0.00 +GCC 87 30.85 18.09 15.43 35.64 0.00 0.00 +GCC 88 32.45 25.00 18.09 24.47 0.00 0.00 +GCC 89 24.47 15.43 19.68 40.43 0.00 0.00 +GCC 90 27.27 21.93 20.86 29.95 0.00 0.00 +GCC 91 28.34 14.97 20.86 35.83 0.00 0.00 +GCC 92 28.34 18.18 20.32 33.16 0.00 0.00 +GCC 93 28.65 18.38 18.38 34.59 0.00 0.00 +GCC 94 29.19 17.84 20.54 32.43 0.00 0.00 +GCC 95 27.72 23.91 21.20 27.17 0.00 0.00 +GCC 96 31.32 18.68 16.48 33.52 0.00 0.00 +GCC 97 21.98 17.58 21.43 39.01 0.00 0.00 +GCC 98 27.47 15.93 18.68 37.91 0.00 0.00 +GCC 99 27.53 20.22 17.98 34.27 0.00 0.00 +GCC 100 34.83 15.17 19.66 30.34 0.00 0.00 +GCC 101 36.52 16.85 20.22 26.40 0.00 0.00 +GCC 102 29.55 22.16 23.30 25.00 0.00 0.00 +GCC 103 27.84 18.75 19.32 34.09 0.00 0.00 +GCC 104 26.14 14.77 22.16 36.93 0.00 0.00 +GCC 105 33.52 11.36 19.89 35.23 0.00 0.00 +GCC 106 28.00 20.00 19.43 32.57 0.00 0.00 +GCC 107 25.88 16.47 24.12 33.53 0.00 0.00 +GCC 108 30.77 20.71 15.98 32.54 0.00 0.00 +GCC 109 26.63 30.18 16.57 26.63 0.00 0.00 +GCC 110 27.81 9.47 23.67 39.05 0.00 0.00 +GCC 111 30.18 16.57 23.67 29.59 0.00 0.00 +GCC 112 28.40 21.30 24.85 25.44 0.00 0.00 +GCC 113 28.57 19.64 22.02 29.76 0.00 0.00 +GCC 114 31.55 23.21 17.86 27.38 0.00 0.00 +GCC 115 35.12 19.64 15.48 29.76 0.00 0.00 +GCC 116 26.79 17.86 22.62 32.74 0.00 0.00 +GCC 117 34.73 22.75 14.37 28.14 0.00 0.00 +GCC 118 27.11 23.49 15.06 34.34 0.00 0.00 +GCC 119 31.93 19.28 20.48 28.31 0.00 0.00 +GCC 120 35.15 16.97 18.18 29.70 0.00 0.00 +GCC 121 26.67 24.85 18.18 30.30 0.00 0.00 +GCC 122 33.94 17.58 19.39 29.09 0.00 0.00 +GCC 123 29.45 19.63 18.40 32.52 0.00 0.00 +GCC 124 24.54 22.09 23.31 30.06 0.00 0.00 +GCC 125 28.22 17.18 20.86 33.74 0.00 0.00 +GCC 126 40.99 17.39 16.15 25.47 0.00 0.00 +GCC 127 28.75 18.12 19.38 33.75 0.00 0.00 +GCC 128 25.16 22.01 20.13 32.70 0.00 0.00 +GCC 129 23.27 16.98 23.27 36.48 0.00 0.00 +GCC 130 33.12 12.74 24.20 29.94 0.00 0.00 +GCC 131 25.48 16.56 21.66 36.31 0.00 0.00 +GCC 132 31.21 19.11 22.29 27.39 0.00 0.00 +GCC 133 30.97 19.35 19.35 30.32 0.00 0.00 +GCC 134 32.90 14.84 23.23 29.03 0.00 0.00 +GCC 135 32.26 18.71 18.06 30.97 0.00 0.00 +GCC 136 34.19 19.35 22.58 23.87 0.00 0.00 +GCC 137 27.27 18.18 20.13 34.42 0.00 0.00 +GCC 138 30.52 18.18 17.53 33.77 0.00 0.00 +GCC 139 26.62 22.08 19.48 31.82 0.00 0.00 +GCC 140 27.81 24.50 19.87 27.81 0.00 0.00 +GCC 141 28.00 23.33 21.33 27.33 0.00 0.00 +GCC 142 29.53 15.44 28.19 26.85 0.00 0.00 +GCC 143 24.66 15.07 23.97 36.30 0.00 0.00 +GCC 144 27.40 16.44 19.86 36.30 0.00 0.00 +GCC 145 29.45 13.70 19.86 36.99 0.00 0.00 +GCC 146 35.86 12.41 18.62 33.10 0.00 0.00 +GCC 147 32.87 20.98 16.08 30.07 0.00 0.00 +GCC 148 31.11 20.74 23.70 24.44 0.00 0.00 +GCC 149 33.07 14.96 19.69 32.28 0.00 0.00 +GCC 150 36.94 14.41 14.41 34.23 0.00 0.00 +GCC 151 40.82 18.37 14.29 26.53 0.00 0.00 +# ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%] +GCT 1 22.50 26.00 32.00 19.50 +GCT 2 20.00 21.50 16.00 42.50 +GCT 3 30.00 16.50 15.00 38.50 +GCT 4 21.50 26.50 12.00 40.00 +GCT 5 44.50 10.00 12.00 33.50 +GCT 6 42.50 13.50 22.50 21.50 +GCT 7 34.50 17.00 23.50 25.00 +GCT 8 37.50 22.50 21.50 18.50 +GCT 9 17.00 39.00 20.50 23.50 +GCT 10 33.00 14.50 13.50 39.00 +GCT 11 34.50 12.50 26.50 26.50 +GCT 12 27.50 14.50 22.50 35.50 +GCT 13 21.50 22.00 24.50 32.00 +GCT 14 28.00 27.50 13.00 31.50 +GCT 15 35.00 15.50 21.00 28.50 +GCT 16 36.50 24.00 17.50 22.00 +GCT 17 36.50 18.00 18.00 27.50 +GCT 18 29.50 23.50 20.00 27.00 +GCT 19 30.00 17.50 21.50 31.00 +GCT 20 30.00 19.00 19.50 31.50 +GCT 21 25.50 20.00 19.50 35.00 +GCT 22 29.00 23.00 19.00 29.00 +GCT 23 30.50 21.00 17.00 31.50 +GCT 24 30.50 22.00 17.00 30.50 +GCT 25 28.50 19.00 19.50 33.00 +GCT 26 27.50 19.00 23.00 30.50 +GCT 27 33.50 21.50 17.00 28.00 +GCT 28 28.50 23.50 20.00 28.00 +GCT 29 32.00 21.00 19.50 27.50 +GCT 30 30.50 20.50 21.00 28.00 +GCT 31 25.00 24.00 21.00 30.00 +GCT 32 37.00 17.50 16.50 29.00 +GCT 33 27.00 19.00 22.00 32.00 +GCT 34 29.50 22.00 22.50 26.00 +GCT 35 29.00 19.50 20.00 31.50 +GCT 36 37.50 17.50 15.00 30.00 +GCT 37 32.50 21.50 17.00 29.00 +GCT 38 30.00 20.50 20.00 29.50 +GCT 39 34.00 20.50 18.50 27.00 +GCT 40 27.00 22.00 19.50 31.50 +GCT 41 32.00 20.00 15.50 32.50 +GCT 42 37.50 17.00 21.00 24.50 +GCT 43 25.50 19.50 18.00 37.00 +GCT 44 31.50 18.50 18.50 31.50 +GCT 45 27.00 20.00 19.00 34.00 +GCT 46 29.00 20.50 20.50 30.00 +GCT 47 29.00 20.50 23.50 27.00 +GCT 48 27.00 21.50 18.50 33.00 +GCT 49 27.00 17.00 20.00 36.00 +GCT 50 29.00 21.00 15.50 34.50 +GCT 51 33.00 21.50 20.00 25.50 +GCT 52 30.50 21.00 20.00 28.50 +GCT 53 24.50 23.00 21.50 31.00 +GCT 54 30.15 20.60 19.60 29.65 +GCT 55 25.13 20.60 21.11 33.17 +GCT 56 26.13 21.11 17.59 35.18 +GCT 57 27.14 20.60 21.11 31.16 +GCT 58 30.15 17.59 21.61 30.65 +GCT 59 32.66 20.60 18.59 28.14 +GCT 60 31.66 18.09 21.61 28.64 +GCT 61 25.13 23.12 21.11 30.65 +GCT 62 24.62 23.12 24.62 27.64 +GCT 63 36.68 17.59 15.58 30.15 +GCT 64 35.18 16.58 20.10 28.14 +GCT 65 30.65 18.59 20.60 30.15 +GCT 66 34.67 15.58 19.60 30.15 +GCT 67 29.29 24.75 19.70 26.26 +GCT 68 28.28 21.21 21.72 28.79 +GCT 69 29.44 22.84 17.26 30.46 +GCT 70 36.22 19.90 18.88 25.00 +GCT 71 34.18 20.92 18.37 26.53 +GCT 72 32.14 17.86 16.84 33.16 +GCT 73 32.82 14.36 22.56 30.26 +GCT 74 30.26 21.54 21.03 27.18 +GCT 75 33.33 18.46 17.95 30.26 +GCT 76 29.23 23.08 17.95 29.74 +GCT 77 29.74 17.95 17.44 34.87 +GCT 78 31.25 20.83 17.19 30.73 +GCT 79 29.17 23.44 17.19 30.21 +GCT 80 35.79 21.05 17.37 25.79 +GCT 81 39.68 20.11 11.11 29.10 +GCT 82 28.04 16.93 22.22 32.80 +GCT 83 29.26 20.21 20.21 30.32 +GCT 84 35.11 18.09 19.68 27.13 +GCT 85 28.72 20.74 17.02 33.51 +GCT 86 29.79 21.28 18.62 30.32 +GCT 87 31.38 18.09 15.43 35.11 +GCT 88 28.72 21.81 21.28 28.19 +GCT 89 30.32 18.62 16.49 34.57 +GCT 90 29.95 13.90 28.88 27.27 +GCT 91 32.09 15.51 20.32 32.09 +GCT 92 26.20 18.18 20.32 35.29 +GCT 93 31.35 18.38 18.38 31.89 +GCT 94 29.73 15.68 22.70 31.89 +GCT 95 28.80 19.57 25.54 26.09 +GCT 96 32.42 20.33 14.84 32.42 +GCT 97 31.87 21.43 17.58 29.12 +GCT 98 30.77 14.29 20.33 34.62 +GCT 99 28.65 17.42 20.79 33.15 +GCT 100 28.65 14.04 20.79 36.52 +GCT 101 27.53 23.03 14.04 35.39 +GCT 102 26.70 17.05 28.41 27.84 +GCT 103 29.55 20.45 17.61 32.39 +GCT 104 34.66 22.16 14.77 28.41 +GCT 105 40.91 13.07 18.18 27.84 +GCT 106 24.57 20.57 18.86 36.00 +GCT 107 26.47 18.24 22.35 32.94 +GCT 108 31.95 17.16 19.53 31.36 +GCT 109 26.04 24.85 21.89 27.22 +GCT 110 32.54 17.75 15.38 34.32 +GCT 111 26.63 17.75 22.49 33.14 +GCT 112 27.81 23.08 23.08 26.04 +GCT 113 35.12 16.67 25.00 23.21 +GCT 114 30.95 21.43 19.64 27.98 +GCT 115 29.17 18.45 16.67 35.71 +GCT 116 30.36 17.86 22.62 29.17 +GCT 117 27.54 21.56 15.57 35.33 +GCT 118 33.13 22.89 15.66 28.31 +GCT 119 33.73 16.87 22.89 26.51 +GCT 120 26.67 13.94 21.21 38.18 +GCT 121 29.09 18.18 24.85 27.88 +GCT 122 27.27 21.21 15.76 35.76 +GCT 123 30.06 17.79 20.25 31.90 +GCT 124 28.22 22.09 23.31 26.38 +GCT 125 27.61 20.25 17.79 34.36 +GCT 126 31.06 16.77 16.77 35.40 +GCT 127 32.50 15.00 22.50 30.00 +GCT 128 25.79 18.87 23.27 32.08 +GCT 129 28.30 20.75 19.50 31.45 +GCT 130 33.12 18.47 18.47 29.94 +GCT 131 31.85 19.75 18.47 29.94 +GCT 132 30.57 22.93 18.47 28.03 +GCT 133 29.68 18.06 20.65 31.61 +GCT 134 30.97 23.23 14.84 30.97 +GCT 135 32.90 16.77 20.00 30.32 +GCT 136 29.03 19.35 22.58 29.03 +GCT 137 27.92 24.68 13.64 33.77 +GCT 138 35.06 16.88 18.83 29.22 +GCT 139 33.12 22.73 18.83 25.32 +GCT 140 34.44 22.52 21.85 21.19 +GCT 141 25.33 22.67 22.00 30.00 +GCT 142 31.54 21.48 22.15 24.83 +GCT 143 35.62 20.55 18.49 25.34 +GCT 144 25.34 14.38 21.92 38.36 +GCT 145 35.62 15.75 17.81 30.82 +GCT 146 33.79 14.48 16.55 35.17 +GCT 147 32.17 20.98 16.08 30.77 +GCT 148 26.67 23.70 20.74 28.89 +GCT 149 40.16 16.54 18.11 25.20 +GCT 150 33.33 9.91 18.92 37.84 +GCT 151 24.49 0.00 32.65 42.86 +# ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +FBC 1 20.00 26.00 32.00 22.00 0.00 0.00 +FBC 2 34.00 16.00 18.00 32.00 0.00 0.00 +FBC 3 35.00 17.00 16.00 32.00 0.00 0.00 +FBC 4 27.00 22.00 22.00 29.00 0.00 0.00 +FBC 5 33.00 10.00 14.00 43.00 0.00 0.00 +FBC 6 30.00 18.00 13.00 39.00 0.00 0.00 +FBC 7 27.00 22.00 21.00 30.00 0.00 0.00 +FBC 8 35.00 20.00 20.00 25.00 0.00 0.00 +FBC 9 23.00 34.00 23.00 20.00 0.00 0.00 +FBC 10 33.00 13.00 14.00 40.00 0.00 0.00 +FBC 11 33.00 17.00 21.00 29.00 0.00 0.00 +FBC 12 35.00 21.00 11.00 33.00 0.00 0.00 +FBC 13 31.00 20.00 21.00 28.00 0.00 0.00 +FBC 14 26.00 23.00 21.00 30.00 0.00 0.00 +FBC 15 25.00 24.00 18.00 33.00 0.00 0.00 +FBC 16 32.00 24.00 23.00 21.00 0.00 0.00 +FBC 17 27.00 13.00 21.00 39.00 0.00 0.00 +FBC 18 26.00 28.00 15.00 31.00 0.00 0.00 +FBC 19 24.00 18.00 19.00 39.00 0.00 0.00 +FBC 20 29.00 16.00 22.00 33.00 0.00 0.00 +FBC 21 21.00 20.00 13.00 46.00 0.00 0.00 +FBC 22 32.00 17.00 21.00 30.00 0.00 0.00 +FBC 23 33.00 13.00 24.00 30.00 0.00 0.00 +FBC 24 34.00 16.00 17.00 33.00 0.00 0.00 +FBC 25 27.00 18.00 22.00 33.00 0.00 0.00 +FBC 26 31.00 15.00 23.00 31.00 0.00 0.00 +FBC 27 29.00 18.00 20.00 33.00 0.00 0.00 +FBC 28 23.00 21.00 20.00 36.00 0.00 0.00 +FBC 29 26.00 14.00 24.00 36.00 0.00 0.00 +FBC 30 26.00 21.00 23.00 30.00 0.00 0.00 +FBC 31 25.00 19.00 22.00 34.00 0.00 0.00 +FBC 32 30.00 21.00 15.00 34.00 0.00 0.00 +FBC 33 31.00 16.00 22.00 31.00 0.00 0.00 +FBC 34 29.00 19.00 22.00 30.00 0.00 0.00 +FBC 35 38.00 13.00 27.00 22.00 0.00 0.00 +FBC 36 33.00 13.00 20.00 34.00 0.00 0.00 +FBC 37 32.00 14.00 18.00 36.00 0.00 0.00 +FBC 38 31.00 22.00 17.00 30.00 0.00 0.00 +FBC 39 32.00 18.00 16.00 34.00 0.00 0.00 +FBC 40 28.00 23.00 20.00 29.00 0.00 0.00 +FBC 41 41.00 14.00 16.00 29.00 0.00 0.00 +FBC 42 27.00 20.00 21.00 32.00 0.00 0.00 +FBC 43 35.00 23.00 14.00 28.00 0.00 0.00 +FBC 44 33.00 14.00 18.00 35.00 0.00 0.00 +FBC 45 30.00 18.00 19.00 33.00 0.00 0.00 +FBC 46 26.00 22.00 24.00 28.00 0.00 0.00 +FBC 47 25.00 26.00 22.00 27.00 0.00 0.00 +FBC 48 27.00 15.00 24.00 34.00 0.00 0.00 +FBC 49 23.00 20.00 21.00 36.00 0.00 0.00 +FBC 50 30.00 14.00 26.00 30.00 0.00 0.00 +FBC 51 32.00 15.00 15.00 38.00 0.00 0.00 +FBC 52 31.00 20.00 19.00 30.00 0.00 0.00 +FBC 53 28.00 17.00 28.00 27.00 0.00 0.00 +FBC 54 28.00 24.00 21.00 27.00 0.00 0.00 +FBC 55 23.00 25.00 20.00 32.00 0.00 0.00 +FBC 56 31.00 19.00 22.00 28.00 0.00 0.00 +FBC 57 33.00 19.00 18.00 30.00 0.00 0.00 +FBC 58 34.00 16.00 25.00 25.00 0.00 0.00 +FBC 59 35.00 22.00 17.00 26.00 0.00 0.00 +FBC 60 24.00 22.00 24.00 30.00 0.00 0.00 +FBC 61 22.00 25.00 27.00 26.00 0.00 0.00 +FBC 62 23.00 30.00 20.00 27.00 0.00 0.00 +FBC 63 30.00 10.00 22.00 38.00 0.00 0.00 +FBC 64 25.00 17.00 20.00 38.00 0.00 0.00 +FBC 65 25.00 24.00 21.00 30.00 0.00 0.00 +FBC 66 33.00 12.00 19.00 36.00 0.00 0.00 +FBC 67 23.00 22.00 19.00 36.00 0.00 0.00 +FBC 68 23.00 21.00 25.00 31.00 0.00 0.00 +FBC 69 31.00 17.00 24.00 28.00 0.00 0.00 +FBC 70 31.00 18.00 27.00 24.00 0.00 0.00 +FBC 71 42.00 17.00 15.00 26.00 0.00 0.00 +FBC 72 34.00 15.00 23.00 28.00 0.00 0.00 +FBC 73 31.31 23.23 19.19 26.26 0.00 0.00 +FBC 74 21.21 22.22 26.26 30.30 0.00 0.00 +FBC 75 32.32 15.15 20.20 32.32 0.00 0.00 +FBC 76 29.29 13.13 17.17 40.40 0.00 0.00 +FBC 77 26.26 18.18 21.21 34.34 0.00 0.00 +FBC 78 28.87 17.53 22.68 30.93 0.00 0.00 +FBC 79 32.99 20.62 20.62 25.77 0.00 0.00 +FBC 80 29.47 16.84 26.32 27.37 0.00 0.00 +FBC 81 32.98 12.77 12.77 41.49 0.00 0.00 +FBC 82 37.23 20.21 21.28 21.28 0.00 0.00 +FBC 83 31.91 23.40 18.09 26.60 0.00 0.00 +FBC 84 24.47 23.40 14.89 37.23 0.00 0.00 +FBC 85 36.17 18.09 20.21 25.53 0.00 0.00 +FBC 86 25.53 19.15 20.21 35.11 0.00 0.00 +FBC 87 29.79 18.09 13.83 38.30 0.00 0.00 +FBC 88 32.98 28.72 15.96 22.34 0.00 0.00 +FBC 89 24.47 20.21 15.96 39.36 0.00 0.00 +FBC 90 31.18 19.35 13.98 35.48 0.00 0.00 +FBC 91 25.81 19.35 18.28 36.56 0.00 0.00 +FBC 92 30.11 18.28 18.28 33.33 0.00 0.00 +FBC 93 28.26 13.04 20.65 38.04 0.00 0.00 +FBC 94 31.52 18.48 20.65 29.35 0.00 0.00 +FBC 95 26.37 21.98 21.98 29.67 0.00 0.00 +FBC 96 24.44 17.78 23.33 34.44 0.00 0.00 +FBC 97 17.78 17.78 21.11 43.33 0.00 0.00 +FBC 98 26.67 13.33 14.44 45.56 0.00 0.00 +FBC 99 27.27 20.45 19.32 32.95 0.00 0.00 +FBC 100 36.36 13.64 22.73 27.27 0.00 0.00 +FBC 101 40.91 15.91 17.05 26.14 0.00 0.00 +FBC 102 28.41 23.86 22.73 25.00 0.00 0.00 +FBC 103 30.68 19.32 18.18 31.82 0.00 0.00 +FBC 104 18.18 18.18 25.00 38.64 0.00 0.00 +FBC 105 30.68 10.23 19.32 39.77 0.00 0.00 +FBC 106 36.36 15.91 21.59 26.14 0.00 0.00 +FBC 107 25.58 15.12 19.77 39.53 0.00 0.00 +FBC 108 32.94 18.82 12.94 35.29 0.00 0.00 +FBC 109 28.24 29.41 17.65 24.71 0.00 0.00 +FBC 110 28.24 10.59 24.71 36.47 0.00 0.00 +FBC 111 34.12 14.12 25.88 25.88 0.00 0.00 +FBC 112 23.53 21.18 28.24 27.06 0.00 0.00 +FBC 113 21.18 21.18 23.53 34.12 0.00 0.00 +FBC 114 23.53 23.53 16.47 36.47 0.00 0.00 +FBC 115 30.59 27.06 12.94 29.41 0.00 0.00 +FBC 116 24.71 15.29 29.41 30.59 0.00 0.00 +FBC 117 29.41 27.06 12.94 30.59 0.00 0.00 +FBC 118 24.71 27.06 15.29 32.94 0.00 0.00 +FBC 119 27.06 22.35 22.35 28.24 0.00 0.00 +FBC 120 36.90 20.24 14.29 28.57 0.00 0.00 +FBC 121 33.33 20.24 15.48 30.95 0.00 0.00 +FBC 122 35.71 20.24 14.29 29.76 0.00 0.00 +FBC 123 24.10 25.30 16.87 33.73 0.00 0.00 +FBC 124 27.71 24.10 19.28 28.92 0.00 0.00 +FBC 125 26.51 16.87 19.28 37.35 0.00 0.00 +FBC 126 41.46 15.85 13.41 29.27 0.00 0.00 +FBC 127 28.05 18.29 24.39 29.27 0.00 0.00 +FBC 128 20.99 20.99 22.22 35.80 0.00 0.00 +FBC 129 22.22 13.58 22.22 41.98 0.00 0.00 +FBC 130 32.50 10.00 26.25 31.25 0.00 0.00 +FBC 131 26.25 15.00 26.25 32.50 0.00 0.00 +FBC 132 30.00 18.75 21.25 30.00 0.00 0.00 +FBC 133 32.91 20.25 17.72 29.11 0.00 0.00 +FBC 134 29.11 15.19 25.32 30.38 0.00 0.00 +FBC 135 31.65 18.99 18.99 30.38 0.00 0.00 +FBC 136 34.18 18.99 25.32 21.52 0.00 0.00 +FBC 137 29.11 10.13 25.32 35.44 0.00 0.00 +FBC 138 25.32 24.05 17.72 32.91 0.00 0.00 +FBC 139 25.32 25.32 18.99 30.38 0.00 0.00 +FBC 140 29.87 24.68 19.48 25.97 0.00 0.00 +FBC 141 29.87 22.08 18.18 29.87 0.00 0.00 +FBC 142 27.63 15.79 30.26 26.32 0.00 0.00 +FBC 143 27.03 18.92 24.32 29.73 0.00 0.00 +FBC 144 28.38 18.92 18.92 33.78 0.00 0.00 +FBC 145 32.43 16.22 14.86 36.49 0.00 0.00 +FBC 146 36.49 13.51 16.22 33.78 0.00 0.00 +FBC 147 34.72 22.22 13.89 29.17 0.00 0.00 +FBC 148 26.87 20.90 26.87 25.37 0.00 0.00 +FBC 149 31.25 12.50 25.00 31.25 0.00 0.00 +FBC 150 32.73 16.36 10.91 40.00 0.00 0.00 +FBC 151 48.28 17.24 13.79 20.69 0.00 0.00 +# ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +FTC 4077 2634 2796 4390 0 +# ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +LBC 1 19.00 27.00 31.00 23.00 0.00 0.00 +LBC 2 27.00 25.00 16.00 32.00 0.00 0.00 +LBC 3 29.00 13.00 17.00 41.00 0.00 0.00 +LBC 4 34.00 20.00 13.00 33.00 0.00 0.00 +LBC 5 46.00 9.00 11.00 34.00 0.00 0.00 +LBC 6 26.00 17.00 24.00 33.00 0.00 0.00 +LBC 7 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 8 24.00 22.00 26.00 28.00 0.00 0.00 +LBC 9 21.00 31.00 31.00 17.00 0.00 0.00 +LBC 10 39.00 11.00 18.00 32.00 0.00 0.00 +LBC 11 23.00 20.00 20.00 37.00 0.00 0.00 +LBC 12 32.00 21.00 21.00 26.00 0.00 0.00 +LBC 13 25.00 18.00 34.00 23.00 0.00 0.00 +LBC 14 23.00 20.00 17.00 40.00 0.00 0.00 +LBC 15 34.00 9.00 22.00 35.00 0.00 0.00 +LBC 16 30.00 16.00 20.00 34.00 0.00 0.00 +LBC 17 28.00 20.00 18.00 34.00 0.00 0.00 +LBC 18 35.00 20.00 24.00 21.00 0.00 0.00 +LBC 19 23.00 25.00 16.00 36.00 0.00 0.00 +LBC 20 34.00 18.00 21.00 27.00 0.00 0.00 +LBC 21 31.00 24.00 22.00 23.00 0.00 0.00 +LBC 22 29.00 21.00 25.00 25.00 0.00 0.00 +LBC 23 30.00 18.00 21.00 31.00 0.00 0.00 +LBC 24 30.00 20.00 25.00 25.00 0.00 0.00 +LBC 25 28.00 15.00 22.00 35.00 0.00 0.00 +LBC 26 24.00 22.00 24.00 30.00 0.00 0.00 +LBC 27 28.00 20.00 19.00 33.00 0.00 0.00 +LBC 28 22.00 21.00 25.00 32.00 0.00 0.00 +LBC 29 28.00 23.00 20.00 29.00 0.00 0.00 +LBC 30 35.00 19.00 20.00 26.00 0.00 0.00 +LBC 31 24.00 23.00 26.00 27.00 0.00 0.00 +LBC 32 35.00 14.00 18.00 33.00 0.00 0.00 +LBC 33 26.00 16.00 28.00 30.00 0.00 0.00 +LBC 34 29.00 23.00 25.00 23.00 0.00 0.00 +LBC 35 27.00 24.00 15.00 34.00 0.00 0.00 +LBC 36 37.00 12.00 20.00 31.00 0.00 0.00 +LBC 37 21.00 26.00 19.00 34.00 0.00 0.00 +LBC 38 23.00 20.00 22.00 35.00 0.00 0.00 +LBC 39 30.00 22.00 22.00 26.00 0.00 0.00 +LBC 40 27.00 17.00 23.00 33.00 0.00 0.00 +LBC 41 33.00 19.00 22.00 26.00 0.00 0.00 +LBC 42 26.00 19.00 16.00 39.00 0.00 0.00 +LBC 43 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 44 30.00 18.00 24.00 28.00 0.00 0.00 +LBC 45 27.00 20.00 21.00 32.00 0.00 0.00 +LBC 46 23.00 25.00 11.00 41.00 0.00 0.00 +LBC 47 20.00 23.00 17.00 40.00 0.00 0.00 +LBC 48 28.00 20.00 21.00 31.00 0.00 0.00 +LBC 49 34.00 14.00 19.00 33.00 0.00 0.00 +LBC 50 34.00 19.00 14.00 33.00 0.00 0.00 +LBC 51 23.00 26.00 27.00 24.00 0.00 0.00 +LBC 52 24.00 23.00 20.00 33.00 0.00 0.00 +LBC 53 24.00 21.00 23.00 32.00 0.00 0.00 +LBC 54 33.33 23.23 12.12 31.31 0.00 0.00 +LBC 55 36.36 18.18 20.20 25.25 0.00 0.00 +LBC 56 33.33 14.14 22.22 30.30 0.00 0.00 +LBC 57 24.24 22.22 24.24 29.29 0.00 0.00 +LBC 58 25.25 13.13 24.24 37.37 0.00 0.00 +LBC 59 27.27 21.21 18.18 33.33 0.00 0.00 +LBC 60 33.33 13.13 20.20 33.33 0.00 0.00 +LBC 61 28.28 18.18 18.18 35.35 0.00 0.00 +LBC 62 31.31 22.22 23.23 23.23 0.00 0.00 +LBC 63 28.28 19.19 15.15 37.37 0.00 0.00 +LBC 64 33.33 13.13 23.23 30.30 0.00 0.00 +LBC 65 32.32 16.16 17.17 34.34 0.00 0.00 +LBC 66 30.30 26.26 13.13 30.30 0.00 0.00 +LBC 67 26.53 18.37 29.59 25.51 0.00 0.00 +LBC 68 30.61 18.37 21.43 29.59 0.00 0.00 +LBC 69 30.93 17.53 21.65 29.90 0.00 0.00 +LBC 70 36.46 15.62 16.67 31.25 0.00 0.00 +LBC 71 28.12 23.96 22.92 25.00 0.00 0.00 +LBC 72 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 73 33.33 13.54 17.71 35.42 0.00 0.00 +LBC 74 34.38 14.58 21.88 29.17 0.00 0.00 +LBC 75 32.29 14.58 22.92 30.21 0.00 0.00 +LBC 76 19.79 27.08 25.00 28.12 0.00 0.00 +LBC 77 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 78 20.00 24.21 11.58 44.21 0.00 0.00 +LBC 79 33.68 21.05 18.95 26.32 0.00 0.00 +LBC 80 32.63 15.79 17.89 33.68 0.00 0.00 +LBC 81 33.68 18.95 17.89 29.47 0.00 0.00 +LBC 82 26.32 18.95 17.89 36.84 0.00 0.00 +LBC 83 28.72 20.21 19.15 31.91 0.00 0.00 +LBC 84 30.85 20.21 17.02 31.91 0.00 0.00 +LBC 85 15.96 12.77 24.47 46.81 0.00 0.00 +LBC 86 24.47 17.02 23.40 35.11 0.00 0.00 +LBC 87 31.91 18.09 17.02 32.98 0.00 0.00 +LBC 88 31.91 21.28 20.21 26.60 0.00 0.00 +LBC 89 24.47 10.64 23.40 41.49 0.00 0.00 +LBC 90 23.40 24.47 27.66 24.47 0.00 0.00 +LBC 91 30.85 10.64 23.40 35.11 0.00 0.00 +LBC 92 26.60 18.09 22.34 32.98 0.00 0.00 +LBC 93 29.03 23.66 16.13 31.18 0.00 0.00 +LBC 94 26.88 17.20 20.43 35.48 0.00 0.00 +LBC 95 29.03 25.81 20.43 24.73 0.00 0.00 +LBC 96 38.04 19.57 9.78 32.61 0.00 0.00 +LBC 97 26.09 17.39 21.74 34.78 0.00 0.00 +LBC 98 28.26 18.48 22.83 30.43 0.00 0.00 +LBC 99 27.78 20.00 16.67 35.56 0.00 0.00 +LBC 100 33.33 16.67 16.67 33.33 0.00 0.00 +LBC 101 32.22 17.78 23.33 26.67 0.00 0.00 +LBC 102 30.68 20.45 23.86 25.00 0.00 0.00 +LBC 103 25.00 18.18 20.45 36.36 0.00 0.00 +LBC 104 34.09 11.36 19.32 35.23 0.00 0.00 +LBC 105 36.36 12.50 20.45 30.68 0.00 0.00 +LBC 106 19.54 24.14 17.24 39.08 0.00 0.00 +LBC 107 26.19 17.86 28.57 27.38 0.00 0.00 +LBC 108 28.57 22.62 19.05 29.76 0.00 0.00 +LBC 109 25.00 30.95 15.48 28.57 0.00 0.00 +LBC 110 27.38 8.33 22.62 41.67 0.00 0.00 +LBC 111 26.19 19.05 21.43 33.33 0.00 0.00 +LBC 112 33.33 21.43 21.43 23.81 0.00 0.00 +LBC 113 36.14 18.07 20.48 25.30 0.00 0.00 +LBC 114 39.76 22.89 19.28 18.07 0.00 0.00 +LBC 115 39.76 12.05 18.07 30.12 0.00 0.00 +LBC 116 28.92 20.48 15.66 34.94 0.00 0.00 +LBC 117 40.24 18.29 15.85 25.61 0.00 0.00 +LBC 118 29.63 19.75 14.81 35.80 0.00 0.00 +LBC 119 37.04 16.05 18.52 28.40 0.00 0.00 +LBC 120 33.33 13.58 22.22 30.86 0.00 0.00 +LBC 121 19.75 29.63 20.99 29.63 0.00 0.00 +LBC 122 32.10 14.81 24.69 28.40 0.00 0.00 +LBC 123 35.00 13.75 20.00 31.25 0.00 0.00 +LBC 124 21.25 20.00 27.50 31.25 0.00 0.00 +LBC 125 30.00 17.50 22.50 30.00 0.00 0.00 +LBC 126 40.51 18.99 18.99 21.52 0.00 0.00 +LBC 127 29.49 17.95 14.10 38.46 0.00 0.00 +LBC 128 29.49 23.08 17.95 29.49 0.00 0.00 +LBC 129 24.36 20.51 24.36 30.77 0.00 0.00 +LBC 130 33.77 15.58 22.08 28.57 0.00 0.00 +LBC 131 24.68 18.18 16.88 40.26 0.00 0.00 +LBC 132 32.47 19.48 23.38 24.68 0.00 0.00 +LBC 133 28.95 18.42 21.05 31.58 0.00 0.00 +LBC 134 36.84 14.47 21.05 27.63 0.00 0.00 +LBC 135 32.89 18.42 17.11 31.58 0.00 0.00 +LBC 136 34.21 19.74 19.74 26.32 0.00 0.00 +LBC 137 25.33 26.67 14.67 33.33 0.00 0.00 +LBC 138 36.00 12.00 17.33 34.67 0.00 0.00 +LBC 139 28.00 18.67 20.00 33.33 0.00 0.00 +LBC 140 25.68 24.32 20.27 29.73 0.00 0.00 +LBC 141 26.03 24.66 24.66 24.66 0.00 0.00 +LBC 142 31.51 15.07 26.03 27.40 0.00 0.00 +LBC 143 22.22 11.11 23.61 43.06 0.00 0.00 +LBC 144 26.39 13.89 20.83 38.89 0.00 0.00 +LBC 145 26.39 11.11 25.00 37.50 0.00 0.00 +LBC 146 35.21 11.27 21.13 32.39 0.00 0.00 +LBC 147 30.99 19.72 18.31 30.99 0.00 0.00 +LBC 148 35.29 20.59 20.59 23.53 0.00 0.00 +LBC 149 34.92 17.46 14.29 33.33 0.00 0.00 +LBC 150 41.07 12.50 17.86 28.57 0.00 0.00 +LBC 151 30.00 20.00 15.00 35.00 0.00 0.00 +# ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +LTC 4051 2592 2808 4297 0 +# Insert sizes. Use `grep ^IS | cut -f 2-` to extract this part. The columns are: insert size, pairs total, inward oriented pairs, outward oriented pairs, other pairs +IS 0 0 0 0 0 +IS 1 0 0 0 0 +IS 2 0 0 0 0 +IS 3 0 0 0 0 +IS 4 0 0 0 0 +IS 5 0 0 0 0 +IS 6 0 0 0 0 +IS 7 0 0 0 0 +IS 8 0 0 0 0 +IS 9 0 0 0 0 +IS 10 0 0 0 0 +IS 11 0 0 0 0 +IS 12 0 0 0 0 +IS 13 0 0 0 0 +IS 14 0 0 0 0 +IS 15 0 0 0 0 +IS 16 0 0 0 0 +IS 17 0 0 0 0 +IS 18 0 0 0 0 +IS 19 0 0 0 0 +IS 20 0 0 0 0 +IS 21 0 0 0 0 +IS 22 0 0 0 0 +IS 23 0 0 0 0 +IS 24 0 0 0 0 +IS 25 0 0 0 0 +IS 26 0 0 0 0 +IS 27 0 0 0 0 +IS 28 0 0 0 0 +IS 29 0 0 0 0 +IS 30 0 0 0 0 +IS 31 0 0 0 0 +IS 32 0 0 0 0 +IS 33 0 0 0 0 +IS 34 0 0 0 0 +IS 35 0 0 0 0 +IS 36 0 0 0 0 +IS 37 0 0 0 0 +IS 38 0 0 0 0 +IS 39 0 0 0 0 +IS 40 0 0 0 0 +IS 41 0 0 0 0 +IS 42 0 0 0 0 +IS 43 0 0 0 0 +IS 44 0 0 0 0 +IS 45 0 0 0 0 +IS 46 0 0 0 0 +IS 47 0 0 0 0 +IS 48 0 0 0 0 +IS 49 0 0 0 0 +IS 50 0 0 0 0 +IS 51 0 0 0 0 +IS 52 0 0 0 0 +IS 53 0 0 0 0 +IS 54 0 0 0 0 +IS 55 0 0 0 0 +IS 56 0 0 0 0 +IS 57 0 0 0 0 +IS 58 0 0 0 0 +IS 59 0 0 0 0 +IS 60 0 0 0 0 +IS 61 0 0 0 0 +IS 62 0 0 0 0 +IS 63 0 0 0 0 +IS 64 0 0 0 0 +IS 65 0 0 0 0 +IS 66 0 0 0 0 +IS 67 0 0 0 0 +IS 68 0 0 0 0 +IS 69 0 0 0 0 +IS 70 0 0 0 0 +IS 71 0 0 0 0 +IS 72 0 0 0 0 +IS 73 0 0 0 0 +IS 74 0 0 0 0 +IS 75 0 0 0 0 +IS 76 0 0 0 0 +IS 77 1 0 1 0 +IS 78 0 0 0 0 +IS 79 0 0 0 0 +IS 80 0 0 0 0 +IS 81 0 0 0 0 +IS 82 1 1 0 0 +IS 83 0 0 0 0 +IS 84 0 0 0 0 +IS 85 0 0 0 0 +IS 86 1 1 0 0 +IS 87 0 0 0 0 +IS 88 0 0 0 0 +IS 89 0 0 0 0 +IS 90 0 0 0 0 +IS 91 0 0 0 0 +IS 92 1 1 0 0 +IS 93 0 0 0 0 +IS 94 0 0 0 0 +IS 95 0 0 0 0 +IS 96 0 0 0 0 +IS 97 0 0 0 0 +IS 98 2 1 1 0 +IS 99 0 0 0 0 +IS 100 0 0 0 0 +IS 101 0 0 0 0 +IS 102 0 0 0 0 +IS 103 0 0 0 0 +IS 104 0 0 0 0 +IS 105 0 0 0 0 +IS 106 2 1 1 0 +IS 107 1 1 0 0 +IS 108 0 0 0 0 +IS 109 0 0 0 0 +IS 110 0 0 0 0 +IS 111 0 0 0 0 +IS 112 1 1 0 0 +IS 113 0 0 0 0 +IS 114 0 0 0 0 +IS 115 0 0 0 0 +IS 116 0 0 0 0 +IS 117 0 0 0 0 +IS 118 1 1 0 0 +IS 119 0 0 0 0 +IS 120 0 0 0 0 +IS 121 0 0 0 0 +IS 122 1 0 1 0 +IS 123 0 0 0 0 +IS 124 0 0 0 0 +IS 125 1 0 1 0 +IS 126 0 0 0 0 +IS 127 1 0 1 0 +IS 128 0 0 0 0 +IS 129 1 0 1 0 +IS 130 0 0 0 0 +IS 131 0 0 0 0 +IS 132 1 1 0 0 +IS 133 0 0 0 0 +IS 134 0 0 0 0 +IS 135 0 0 0 0 +IS 136 0 0 0 0 +IS 137 0 0 0 0 +IS 138 0 0 0 0 +IS 139 1 1 0 0 +IS 140 1 1 0 0 +IS 141 0 0 0 0 +IS 142 1 0 1 0 +IS 143 0 0 0 0 +IS 144 0 0 0 0 +IS 145 0 0 0 0 +IS 146 0 0 0 0 +IS 147 1 1 0 0 +IS 148 1 0 1 0 +IS 149 0 0 0 0 +IS 150 1 1 0 0 +IS 151 0 0 0 0 +IS 152 0 0 0 0 +IS 153 0 0 0 0 +IS 154 0 0 0 0 +IS 155 0 0 0 0 +IS 156 0 0 0 0 +IS 157 0 0 0 0 +IS 158 1 1 0 0 +IS 159 3 3 0 0 +IS 160 0 0 0 0 +IS 161 0 0 0 0 +IS 162 0 0 0 0 +IS 163 0 0 0 0 +IS 164 0 0 0 0 +IS 165 0 0 0 0 +IS 166 2 2 0 0 +IS 167 0 0 0 0 +IS 168 2 2 0 0 +IS 169 0 0 0 0 +IS 170 0 0 0 0 +IS 171 1 1 0 0 +IS 172 1 1 0 0 +IS 173 0 0 0 0 +IS 174 1 1 0 0 +IS 175 0 0 0 0 +IS 176 0 0 0 0 +IS 177 1 1 0 0 +IS 178 1 1 0 0 +IS 179 0 0 0 0 +IS 180 2 2 0 0 +IS 181 0 0 0 0 +IS 182 0 0 0 0 +IS 183 0 0 0 0 +IS 184 0 0 0 0 +IS 185 1 1 0 0 +IS 186 0 0 0 0 +IS 187 1 1 0 0 +IS 188 0 0 0 0 +IS 189 1 1 0 0 +IS 190 0 0 0 0 +IS 191 1 1 0 0 +IS 192 0 0 0 0 +IS 193 0 0 0 0 +IS 194 0 0 0 0 +IS 195 1 1 0 0 +IS 196 0 0 0 0 +IS 197 1 1 0 0 +IS 198 1 1 0 0 +IS 199 0 0 0 0 +IS 200 0 0 0 0 +IS 201 2 2 0 0 +IS 202 1 1 0 0 +IS 203 0 0 0 0 +IS 204 1 1 0 0 +IS 205 0 0 0 0 +IS 206 0 0 0 0 +IS 207 0 0 0 0 +IS 208 0 0 0 0 +IS 209 1 1 0 0 +IS 210 0 0 0 0 +IS 211 0 0 0 0 +IS 212 0 0 0 0 +IS 213 0 0 0 0 +IS 214 1 1 0 0 +IS 215 0 0 0 0 +IS 216 0 0 0 0 +IS 217 0 0 0 0 +IS 218 1 1 0 0 +IS 219 1 1 0 0 +IS 220 0 0 0 0 +IS 221 0 0 0 0 +IS 222 1 1 0 0 +IS 223 0 0 0 0 +IS 224 0 0 0 0 +IS 225 0 0 0 0 +IS 226 0 0 0 0 +IS 227 1 1 0 0 +IS 228 0 0 0 0 +IS 229 0 0 0 0 +IS 230 0 0 0 0 +IS 231 1 1 0 0 +IS 232 1 1 0 0 +IS 233 1 1 0 0 +IS 234 2 2 0 0 +IS 235 3 3 0 0 +IS 236 1 1 0 0 +IS 237 0 0 0 0 +IS 238 2 2 0 0 +IS 239 0 0 0 0 +IS 240 1 1 0 0 +IS 241 0 0 0 0 +IS 242 0 0 0 0 +IS 243 0 0 0 0 +IS 244 1 1 0 0 +IS 245 1 1 0 0 +IS 246 1 1 0 0 +IS 247 2 2 0 0 +IS 248 0 0 0 0 +IS 249 1 1 0 0 +IS 250 0 0 0 0 +IS 251 1 1 0 0 +IS 252 0 0 0 0 +IS 253 0 0 0 0 +IS 254 1 1 0 0 +IS 255 1 1 0 0 +IS 256 0 0 0 0 +IS 257 0 0 0 0 +IS 258 0 0 0 0 +IS 259 1 1 0 0 +IS 260 0 0 0 0 +IS 261 0 0 0 0 +IS 262 0 0 0 0 +IS 263 0 0 0 0 +IS 264 0 0 0 0 +IS 265 0 0 0 0 +IS 266 1 1 0 0 +IS 267 1 1 0 0 +IS 268 1 1 0 0 +IS 269 0 0 0 0 +IS 270 0 0 0 0 +IS 271 0 0 0 0 +IS 272 2 2 0 0 +IS 273 0 0 0 0 +IS 274 0 0 0 0 +IS 275 0 0 0 0 +IS 276 1 1 0 0 +IS 277 0 0 0 0 +IS 278 1 1 0 0 +IS 279 0 0 0 0 +IS 280 0 0 0 0 +IS 281 1 1 0 0 +IS 282 1 1 0 0 +IS 283 0 0 0 0 +IS 284 1 1 0 0 +IS 285 0 0 0 0 +IS 286 0 0 0 0 +IS 287 0 0 0 0 +IS 288 0 0 0 0 +IS 289 0 0 0 0 +IS 290 0 0 0 0 +IS 291 1 1 0 0 +IS 292 0 0 0 0 +IS 293 0 0 0 0 +IS 294 1 1 0 0 +IS 295 0 0 0 0 +IS 296 0 0 0 0 +IS 297 0 0 0 0 +IS 298 0 0 0 0 +IS 299 0 0 0 0 +IS 300 0 0 0 0 +IS 301 0 0 0 0 +IS 302 0 0 0 0 +IS 303 0 0 0 0 +IS 304 1 1 0 0 +IS 305 1 1 0 0 +IS 306 0 0 0 0 +IS 307 0 0 0 0 +IS 308 0 0 0 0 +IS 309 0 0 0 0 +IS 310 1 1 0 0 +IS 311 0 0 0 0 +IS 312 0 0 0 0 +IS 313 0 0 0 0 +IS 314 1 1 0 0 +IS 315 0 0 0 0 +IS 316 0 0 0 0 +IS 317 0 0 0 0 +IS 318 1 1 0 0 +IS 319 0 0 0 0 +IS 320 1 1 0 0 +IS 321 0 0 0 0 +IS 322 0 0 0 0 +IS 323 0 0 0 0 +IS 324 0 0 0 0 +IS 325 0 0 0 0 +IS 326 0 0 0 0 +IS 327 0 0 0 0 +IS 328 0 0 0 0 +IS 329 0 0 0 0 +IS 330 0 0 0 0 +IS 331 0 0 0 0 +IS 332 0 0 0 0 +IS 333 0 0 0 0 +IS 334 0 0 0 0 +IS 335 0 0 0 0 +IS 336 0 0 0 0 +IS 337 0 0 0 0 +IS 338 0 0 0 0 +IS 339 1 1 0 0 +IS 340 0 0 0 0 +IS 341 0 0 0 0 +IS 342 0 0 0 0 +IS 343 1 1 0 0 +IS 344 0 0 0 0 +IS 345 0 0 0 0 +IS 346 0 0 0 0 +IS 347 0 0 0 0 +IS 348 0 0 0 0 +IS 349 0 0 0 0 +IS 350 0 0 0 0 +IS 351 0 0 0 0 +IS 352 0 0 0 0 +IS 353 0 0 0 0 +IS 354 0 0 0 0 +IS 355 0 0 0 0 +IS 356 0 0 0 0 +IS 357 0 0 0 0 +IS 358 0 0 0 0 +IS 359 0 0 0 0 +IS 360 0 0 0 0 +IS 361 0 0 0 0 +IS 362 0 0 0 0 +IS 363 0 0 0 0 +IS 364 1 1 0 0 +# Read lengths. Use `grep ^RL | cut -f 2-` to extract this part. The columns are: read length, count +RL 53 1 +RL 66 1 +RL 68 1 +RL 69 1 +RL 72 1 +RL 77 3 +RL 79 2 +RL 80 1 +RL 82 1 +RL 89 1 +RL 92 2 +RL 94 1 +RL 95 2 +RL 98 4 +RL 101 2 +RL 105 1 +RL 106 5 +RL 107 1 +RL 112 1 +RL 116 1 +RL 117 1 +RL 119 1 +RL 122 2 +RL 125 2 +RL 126 1 +RL 127 1 +RL 129 2 +RL 132 2 +RL 136 1 +RL 139 3 +RL 140 1 +RL 141 1 +RL 142 3 +RL 145 1 +RL 146 2 +RL 147 8 +RL 148 8 +RL 149 16 +RL 150 62 +RL 151 49 +# Read lengths - first fragments. Use `grep ^FRL | cut -f 2-` to extract this part. The columns are: read length, count +FRL 72 1 +FRL 77 2 +FRL 79 2 +FRL 80 1 +FRL 89 1 +FRL 92 1 +FRL 94 1 +FRL 95 1 +FRL 98 2 +FRL 106 2 +FRL 107 1 +FRL 119 1 +FRL 122 1 +FRL 125 1 +FRL 127 1 +FRL 129 1 +FRL 132 1 +FRL 139 2 +FRL 141 1 +FRL 142 2 +FRL 146 2 +FRL 147 5 +FRL 148 3 +FRL 149 9 +FRL 150 26 +FRL 151 29 +# Read lengths - last fragments. Use `grep ^LRL | cut -f 2-` to extract this part. The columns are: read length, count +LRL 53 1 +LRL 66 1 +LRL 68 1 +LRL 69 1 +LRL 77 1 +LRL 82 1 +LRL 92 1 +LRL 95 1 +LRL 98 2 +LRL 101 2 +LRL 105 1 +LRL 106 3 +LRL 112 1 +LRL 116 1 +LRL 117 1 +LRL 122 1 +LRL 125 1 +LRL 126 1 +LRL 129 1 +LRL 132 1 +LRL 136 1 +LRL 139 1 +LRL 140 1 +LRL 142 1 +LRL 145 1 +LRL 147 3 +LRL 148 5 +LRL 149 7 +LRL 150 36 +LRL 151 20 +# Mapping qualities for reads !(UNMAP|SECOND|SUPPL|QCFAIL|DUP). Use `grep ^MAPQ | cut -f 2-` to extract this part. The columns are: mapq, count +MAPQ 1 1 +MAPQ 36 1 +MAPQ 37 1 +MAPQ 38 2 +MAPQ 48 14 +MAPQ 49 1 +MAPQ 50 5 +MAPQ 51 1 +MAPQ 52 1 +MAPQ 55 2 +MAPQ 57 1 +MAPQ 59 1 +MAPQ 60 166 +# Indel distribution. Use `grep ^ID | cut -f 2-` to extract this part. The columns are: length, number of insertions, number of deletions +ID 1 0 8 +ID 2 0 1 +ID 32 0 1 +# Indels per cycle. Use `grep ^IC | cut -f 2-` to extract this part. The columns are: cycle, number of insertions (fwd), .. (rev) , number of deletions (fwd), .. (rev) +IC 5 0 0 1 0 +IC 7 0 0 1 1 +IC 72 0 0 1 0 +IC 85 0 0 1 0 +IC 97 0 0 1 0 +IC 107 0 0 0 1 +IC 121 0 0 0 1 +IC 135 0 0 0 1 +IC 137 0 0 1 0 +# Coverage distribution. Use `grep ^COV | cut -f 2-` to extract this part. +COV [1-1] 1 5542 +COV [2-2] 2 3794 +COV [3-3] 3 1571 +COV [4-4] 4 944 +COV [5-5] 5 491 +COV [6-6] 6 377 +COV [7-7] 7 50 +COV [8-8] 8 39 +COV [9-9] 9 27 +COV [10-10] 10 16 +# GC-depth. Use `grep ^GCD | cut -f 2-` to extract this part. The columns are: GC%, unique sequence percentiles, 10th, 25th, 50th, 75th and 90th depth percentile +GCD 0.0 66.667 0.000 0.000 0.000 0.000 0.000 +GCD 19.2 100.000 0.318 0.318 0.318 0.318 0.318 diff --git a/src/samtools/samtools_stats/test_data/ref.p.paired_end.sorted.txt b/src/samtools/samtools_stats/test_data/ref.p.paired_end.sorted.txt new file mode 100644 index 00000000..6355d2d0 --- /dev/null +++ b/src/samtools/samtools_stats/test_data/ref.p.paired_end.sorted.txt @@ -0,0 +1,1535 @@ +# This file was produced by samtools stats (1.19.2+htslib-1.19.1) and can be plotted using plot-bamstats +# This file contains statistics for all reads. +# The command line was: stats -p test_data/test.paired_end.sorted.bam +# CHK, Checksum [2]Read Names [3]Sequences [4]Qualities +# CHK, CRC32 of reads which passed filtering followed by addition (32bit overflow) +CHK 696e2242 1799722a a8072f55 +# Summary Numbers. Use `grep ^SN | cut -f 2-` to extract this part. +SN raw total sequences: 200 # excluding supplementary and secondary reads +SN filtered sequences: 0 +SN sequences: 200 +SN is sorted: 1 +SN 1st fragments: 100 +SN last fragments: 100 +SN reads mapped: 197 +SN reads mapped and paired: 194 # paired-end technology bit set + both mates mapped +SN reads unmapped: 3 +SN reads properly paired: 192 # proper-pair bit set +SN reads paired: 200 # paired-end technology bit set +SN reads duplicated: 0 # PCR or optical duplicate bit set +SN reads MQ0: 0 # mapped and MQ=0 +SN reads QC failed: 0 +SN non-primary alignments: 0 +SN supplementary alignments: 0 +SN total length: 27645 # ignores clipping +SN total first fragment length: 13897 # ignores clipping +SN total last fragment length: 13748 # ignores clipping +SN bases mapped: 27423 # ignores clipping +SN bases mapped (cigar): 20188 # more accurate +SN bases trimmed: 0 +SN bases duplicated: 0 +SN mismatches: 140 # from NM fields +SN error rate: 6.934813e-03 # mismatches / bases mapped (cigar) +SN average length: 138 +SN average first fragment length: 139 +SN average last fragment length: 137 +SN maximum length: 151 +SN maximum first fragment length: 151 +SN maximum last fragment length: 151 +SN average quality: 33.3 +SN insert size average: 207.7 +SN insert size standard deviation: 66.4 +SN inward oriented pairs: 88 +SN outward oriented pairs: 9 +SN pairs with other orientation: 0 +SN pairs on different chromosomes: 0 +SN percentage of properly paired reads (%): 96.0 +# First Fragment Qualities. Use `grep ^FFQ | cut -f 2-` to extract this part. +# Columns correspond to qualities and rows to cycles. First column is the cycle number. +FFQ 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 +FFQ 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 +FFQ 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 0 0 0 +FFQ 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 94 0 0 0 1 0 +FFQ 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 93 0 0 0 0 0 +FFQ 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 7 0 0 0 86 0 +FFQ 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 7 0 0 0 84 0 +FFQ 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 2 0 0 0 0 0 1 0 0 0 0 12 0 0 0 83 0 +FFQ 9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 85 0 +FFQ 10 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 1 0 0 0 0 5 0 0 0 87 0 +FFQ 11 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 90 0 +FFQ 12 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 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0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 2 0 0 0 0 0 4 0 0 0 0 7 0 0 0 74 0 +LFQ 72 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 11 0 0 0 71 0 +LFQ 73 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 6 0 0 0 80 0 +LFQ 74 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 4 0 0 0 0 8 0 0 0 75 0 +LFQ 75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 11 0 0 0 80 0 +LFQ 76 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 8 0 0 0 80 0 +LFQ 77 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 6 0 0 0 77 0 +LFQ 78 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 13 0 0 0 69 0 +LFQ 79 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 74 0 +LFQ 80 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 2 0 0 0 0 0 3 0 0 0 0 12 0 0 0 72 0 +LFQ 81 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 10 0 0 0 79 0 +LFQ 82 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 9 0 0 0 78 0 +LFQ 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 9 0 0 0 74 0 +LFQ 84 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 12 0 0 0 72 0 +LFQ 85 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 14 0 0 0 66 0 +LFQ 86 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 12 0 0 0 72 0 +LFQ 87 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 4 0 0 0 78 0 +LFQ 88 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 8 0 0 0 70 0 +LFQ 89 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 10 0 0 0 73 0 +LFQ 90 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 11 0 0 0 72 0 +LFQ 91 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 11 0 0 0 72 0 +LFQ 92 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 14 0 0 0 68 0 +LFQ 93 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 9 0 0 0 68 0 +LFQ 94 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 15 0 0 0 68 0 +LFQ 95 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 19 0 0 0 64 0 +LFQ 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 13 0 0 0 66 0 +LFQ 97 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 12 0 0 0 70 0 +LFQ 98 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 2 0 0 0 0 0 4 0 0 0 0 13 0 0 0 67 0 +LFQ 99 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 12 0 0 0 62 0 +LFQ 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 15 0 0 0 59 0 +LFQ 101 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 11 0 0 0 63 0 +LFQ 102 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 15 0 0 0 60 0 +LFQ 103 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 14 0 0 0 64 0 +LFQ 104 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 21 0 0 0 57 0 +LFQ 105 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 19 0 0 0 55 0 +LFQ 106 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 19 0 0 0 55 0 +LFQ 107 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 17 0 0 0 60 0 +LFQ 108 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 13 0 0 0 58 0 +LFQ 109 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 19 0 0 0 55 0 +LFQ 110 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 16 0 0 0 48 0 +LFQ 111 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 14 0 0 0 55 0 +LFQ 112 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 22 0 0 0 43 0 +LFQ 113 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 18 0 0 0 47 0 +LFQ 114 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 0 0 4 0 0 0 0 0 5 0 0 0 0 13 0 0 0 50 0 +LFQ 115 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 11 0 0 0 0 19 0 0 0 44 0 +LFQ 116 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 18 0 0 0 49 0 +LFQ 117 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 25 0 0 0 39 0 +LFQ 118 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 2 0 0 0 0 0 8 0 0 0 0 32 0 0 0 35 0 +LFQ 119 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 25 0 0 0 41 0 +LFQ 120 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 21 0 0 0 46 0 +LFQ 121 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 28 0 0 0 35 0 +LFQ 122 0 0 0 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 21 0 0 0 40 0 +LFQ 123 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 12 0 0 0 0 19 0 0 0 42 0 +LFQ 124 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 15 0 0 0 0 23 0 0 0 35 0 +LFQ 125 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 30 0 0 0 32 0 +LFQ 126 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 4 0 0 0 0 27 0 0 0 41 0 +LFQ 127 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 6 0 0 0 0 26 0 0 0 41 0 +LFQ 128 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 24 0 0 0 38 0 +LFQ 129 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 3 0 0 0 0 0 8 0 0 0 0 20 0 0 0 41 0 +LFQ 130 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 4 0 0 0 0 0 10 0 0 0 0 31 0 0 0 30 0 +LFQ 131 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 23 0 0 0 36 0 +LFQ 132 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 3 0 0 0 0 0 9 0 0 0 0 21 0 0 0 35 0 +LFQ 133 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 26 0 0 0 36 0 +LFQ 134 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 4 0 0 0 0 0 3 0 0 0 0 28 0 0 0 35 0 +LFQ 135 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 23 0 0 0 35 0 +LFQ 136 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 26 0 0 0 41 0 +LFQ 137 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 4 0 0 0 0 0 7 0 0 0 0 24 0 0 0 38 0 +LFQ 138 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 0 20 0 0 0 36 0 +LFQ 139 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 7 0 0 0 0 25 0 0 0 38 0 +LFQ 140 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 3 0 0 0 0 0 8 0 0 0 0 19 0 0 0 36 0 +LFQ 141 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 6 0 0 0 0 22 0 0 0 38 0 +LFQ 142 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 20 0 0 0 35 0 +LFQ 143 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 3 0 0 0 0 0 9 0 0 0 0 17 0 0 0 35 0 +LFQ 144 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 22 0 0 0 38 0 +LFQ 145 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 20 0 0 0 38 0 +LFQ 146 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 3 0 0 0 0 0 7 0 0 0 0 23 0 0 0 35 0 +LFQ 147 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 31 0 0 0 28 0 +LFQ 148 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 23 0 0 0 28 0 +LFQ 149 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 19 0 0 0 29 0 +LFQ 150 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 23 0 0 0 30 0 +LFQ 151 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 4 0 +# GC Content of first fragments. Use `grep ^GCF | cut -f 2-` to extract this part. +GCF 15.08 0 +GCF 30.40 1 +GCF 31.16 2 +GCF 32.16 0 +GCF 33.17 2 +GCF 33.92 5 +GCF 34.42 4 +GCF 34.92 2 +GCF 35.43 3 +GCF 35.93 7 +GCF 36.43 9 +GCF 36.93 4 +GCF 37.44 7 +GCF 37.94 8 +GCF 38.44 10 +GCF 38.94 7 +GCF 39.70 6 +GCF 40.45 8 +GCF 40.95 9 +GCF 41.71 4 +GCF 42.46 5 +GCF 42.96 7 +GCF 43.72 2 +GCF 44.72 1 +GCF 45.48 3 +GCF 46.48 2 +GCF 47.74 1 +GCF 48.74 2 +GCF 50.25 0 +GCF 52.01 1 +GCF 54.77 0 +GCF 57.54 1 +# GC Content of last fragments. Use `grep ^GCL | cut -f 2-` to extract this part. +GCL 15.08 0 +GCL 30.65 1 +GCL 31.66 0 +GCL 32.41 2 +GCL 32.91 1 +GCL 33.42 3 +GCL 33.92 4 +GCL 34.42 3 +GCL 34.92 4 +GCL 35.68 5 +GCL 36.43 10 +GCL 36.93 8 +GCL 37.44 7 +GCL 37.94 9 +GCL 38.44 10 +GCL 38.94 13 +GCL 39.45 8 +GCL 39.95 7 +GCL 40.45 2 +GCL 40.95 4 +GCL 41.46 3 +GCL 41.96 1 +GCL 42.46 4 +GCL 42.96 6 +GCL 43.47 4 +GCL 44.22 2 +GCL 44.97 4 +GCL 45.48 7 +GCL 45.98 3 +GCL 46.48 2 +GCL 46.98 3 +GCL 47.49 1 +GCL 48.49 0 +GCL 49.75 2 +# ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +GCC 1 19.50 26.50 31.50 22.50 0.00 0.00 +GCC 2 30.50 20.50 17.00 32.00 0.00 0.00 +GCC 3 32.00 15.00 16.50 36.50 0.00 0.00 +GCC 4 30.50 21.00 17.50 31.00 0.00 0.00 +GCC 5 39.50 9.50 12.50 38.50 0.00 0.00 +GCC 6 28.00 17.50 18.50 36.00 0.00 0.00 +GCC 7 29.50 19.50 21.00 30.00 0.00 0.00 +GCC 8 29.50 21.00 23.00 26.50 0.00 0.00 +GCC 9 22.00 32.50 27.00 18.50 0.00 0.00 +GCC 10 36.00 12.00 16.00 36.00 0.00 0.00 +GCC 11 28.00 18.50 20.50 33.00 0.00 0.00 +GCC 12 33.50 21.00 16.00 29.50 0.00 0.00 +GCC 13 28.00 19.00 27.50 25.50 0.00 0.00 +GCC 14 24.50 21.50 19.00 35.00 0.00 0.00 +GCC 15 29.50 16.50 20.00 34.00 0.00 0.00 +GCC 16 31.00 20.00 21.50 27.50 0.00 0.00 +GCC 17 27.50 16.50 19.50 36.50 0.00 0.00 +GCC 18 30.50 24.00 19.50 26.00 0.00 0.00 +GCC 19 23.50 21.50 17.50 37.50 0.00 0.00 +GCC 20 31.50 17.00 21.50 30.00 0.00 0.00 +GCC 21 26.00 22.00 17.50 34.50 0.00 0.00 +GCC 22 30.50 19.00 23.00 27.50 0.00 0.00 +GCC 23 31.50 15.50 22.50 30.50 0.00 0.00 +GCC 24 32.00 18.00 21.00 29.00 0.00 0.00 +GCC 25 27.50 16.50 22.00 34.00 0.00 0.00 +GCC 26 27.50 18.50 23.50 30.50 0.00 0.00 +GCC 27 28.50 19.00 19.50 33.00 0.00 0.00 +GCC 28 22.50 21.00 22.50 34.00 0.00 0.00 +GCC 29 27.00 18.50 22.00 32.50 0.00 0.00 +GCC 30 30.50 20.00 21.50 28.00 0.00 0.00 +GCC 31 24.50 21.00 24.00 30.50 0.00 0.00 +GCC 32 32.50 17.50 16.50 33.50 0.00 0.00 +GCC 33 28.50 16.00 25.00 30.50 0.00 0.00 +GCC 34 29.00 21.00 23.50 26.50 0.00 0.00 +GCC 35 32.50 18.50 21.00 28.00 0.00 0.00 +GCC 36 35.00 12.50 20.00 32.50 0.00 0.00 +GCC 37 26.50 20.00 18.50 35.00 0.00 0.00 +GCC 38 27.00 21.00 19.50 32.50 0.00 0.00 +GCC 39 31.00 20.00 19.00 30.00 0.00 0.00 +GCC 40 27.50 20.00 21.50 31.00 0.00 0.00 +GCC 41 37.00 16.50 19.00 27.50 0.00 0.00 +GCC 42 26.50 19.50 18.50 35.50 0.00 0.00 +GCC 43 33.50 20.00 17.50 29.00 0.00 0.00 +GCC 44 31.50 16.00 21.00 31.50 0.00 0.00 +GCC 45 28.50 19.00 20.00 32.50 0.00 0.00 +GCC 46 24.50 23.50 17.50 34.50 0.00 0.00 +GCC 47 22.50 24.50 19.50 33.50 0.00 0.00 +GCC 48 27.50 17.50 22.50 32.50 0.00 0.00 +GCC 49 28.50 17.00 20.00 34.50 0.00 0.00 +GCC 50 32.00 16.50 20.00 31.50 0.00 0.00 +GCC 51 27.50 20.50 21.00 31.00 0.00 0.00 +GCC 52 27.50 21.50 19.50 31.50 0.00 0.00 +GCC 53 26.00 19.00 25.50 29.50 0.00 0.00 +GCC 54 30.65 23.62 16.58 29.15 0.00 0.00 +GCC 55 29.65 21.61 20.10 28.64 0.00 0.00 +GCC 56 32.16 16.58 22.11 29.15 0.00 0.00 +GCC 57 28.64 20.60 21.11 29.65 0.00 0.00 +GCC 58 29.65 14.57 24.62 31.16 0.00 0.00 +GCC 59 31.16 21.61 17.59 29.65 0.00 0.00 +GCC 60 28.64 17.59 22.11 31.66 0.00 0.00 +GCC 61 25.13 21.61 22.61 30.65 0.00 0.00 +GCC 62 27.14 26.13 21.61 25.13 0.00 0.00 +GCC 63 29.15 14.57 18.59 37.69 0.00 0.00 +GCC 64 29.15 15.08 21.61 34.17 0.00 0.00 +GCC 65 28.64 20.10 19.10 32.16 0.00 0.00 +GCC 66 31.66 19.10 16.08 33.17 0.00 0.00 +GCC 67 24.75 20.20 24.24 30.81 0.00 0.00 +GCC 68 26.77 19.70 23.23 30.30 0.00 0.00 +GCC 69 30.96 17.26 22.84 28.93 0.00 0.00 +GCC 70 33.67 16.84 21.94 27.55 0.00 0.00 +GCC 71 35.20 20.41 18.88 25.51 0.00 0.00 +GCC 72 33.67 15.82 18.88 31.63 0.00 0.00 +GCC 73 32.31 18.46 18.46 30.77 0.00 0.00 +GCC 74 27.69 18.46 24.10 29.74 0.00 0.00 +GCC 75 32.31 14.87 21.54 31.28 0.00 0.00 +GCC 76 24.62 20.00 21.03 34.36 0.00 0.00 +GCC 77 29.74 17.44 17.95 34.87 0.00 0.00 +GCC 78 24.48 20.83 17.19 37.50 0.00 0.00 +GCC 79 33.33 20.83 19.79 26.04 0.00 0.00 +GCC 80 31.05 16.32 22.11 30.53 0.00 0.00 +GCC 81 33.33 15.87 15.34 35.45 0.00 0.00 +GCC 82 31.75 19.58 19.58 29.10 0.00 0.00 +GCC 83 30.32 21.81 18.62 29.26 0.00 0.00 +GCC 84 27.66 21.81 15.96 34.57 0.00 0.00 +GCC 85 26.06 15.43 22.34 36.17 0.00 0.00 +GCC 86 25.00 18.09 21.81 35.11 0.00 0.00 +GCC 87 30.85 18.09 15.43 35.64 0.00 0.00 +GCC 88 32.45 25.00 18.09 24.47 0.00 0.00 +GCC 89 24.47 15.43 19.68 40.43 0.00 0.00 +GCC 90 27.27 21.93 20.86 29.95 0.00 0.00 +GCC 91 28.34 14.97 20.86 35.83 0.00 0.00 +GCC 92 28.34 18.18 20.32 33.16 0.00 0.00 +GCC 93 28.65 18.38 18.38 34.59 0.00 0.00 +GCC 94 29.19 17.84 20.54 32.43 0.00 0.00 +GCC 95 27.72 23.91 21.20 27.17 0.00 0.00 +GCC 96 31.32 18.68 16.48 33.52 0.00 0.00 +GCC 97 21.98 17.58 21.43 39.01 0.00 0.00 +GCC 98 27.47 15.93 18.68 37.91 0.00 0.00 +GCC 99 27.53 20.22 17.98 34.27 0.00 0.00 +GCC 100 34.83 15.17 19.66 30.34 0.00 0.00 +GCC 101 36.52 16.85 20.22 26.40 0.00 0.00 +GCC 102 29.55 22.16 23.30 25.00 0.00 0.00 +GCC 103 27.84 18.75 19.32 34.09 0.00 0.00 +GCC 104 26.14 14.77 22.16 36.93 0.00 0.00 +GCC 105 33.52 11.36 19.89 35.23 0.00 0.00 +GCC 106 28.00 20.00 19.43 32.57 0.00 0.00 +GCC 107 25.88 16.47 24.12 33.53 0.00 0.00 +GCC 108 30.77 20.71 15.98 32.54 0.00 0.00 +GCC 109 26.63 30.18 16.57 26.63 0.00 0.00 +GCC 110 27.81 9.47 23.67 39.05 0.00 0.00 +GCC 111 30.18 16.57 23.67 29.59 0.00 0.00 +GCC 112 28.40 21.30 24.85 25.44 0.00 0.00 +GCC 113 28.57 19.64 22.02 29.76 0.00 0.00 +GCC 114 31.55 23.21 17.86 27.38 0.00 0.00 +GCC 115 35.12 19.64 15.48 29.76 0.00 0.00 +GCC 116 26.79 17.86 22.62 32.74 0.00 0.00 +GCC 117 34.73 22.75 14.37 28.14 0.00 0.00 +GCC 118 27.11 23.49 15.06 34.34 0.00 0.00 +GCC 119 31.93 19.28 20.48 28.31 0.00 0.00 +GCC 120 35.15 16.97 18.18 29.70 0.00 0.00 +GCC 121 26.67 24.85 18.18 30.30 0.00 0.00 +GCC 122 33.94 17.58 19.39 29.09 0.00 0.00 +GCC 123 29.45 19.63 18.40 32.52 0.00 0.00 +GCC 124 24.54 22.09 23.31 30.06 0.00 0.00 +GCC 125 28.22 17.18 20.86 33.74 0.00 0.00 +GCC 126 40.99 17.39 16.15 25.47 0.00 0.00 +GCC 127 28.75 18.12 19.38 33.75 0.00 0.00 +GCC 128 25.16 22.01 20.13 32.70 0.00 0.00 +GCC 129 23.27 16.98 23.27 36.48 0.00 0.00 +GCC 130 33.12 12.74 24.20 29.94 0.00 0.00 +GCC 131 25.48 16.56 21.66 36.31 0.00 0.00 +GCC 132 31.21 19.11 22.29 27.39 0.00 0.00 +GCC 133 30.97 19.35 19.35 30.32 0.00 0.00 +GCC 134 32.90 14.84 23.23 29.03 0.00 0.00 +GCC 135 32.26 18.71 18.06 30.97 0.00 0.00 +GCC 136 34.19 19.35 22.58 23.87 0.00 0.00 +GCC 137 27.27 18.18 20.13 34.42 0.00 0.00 +GCC 138 30.52 18.18 17.53 33.77 0.00 0.00 +GCC 139 26.62 22.08 19.48 31.82 0.00 0.00 +GCC 140 27.81 24.50 19.87 27.81 0.00 0.00 +GCC 141 28.00 23.33 21.33 27.33 0.00 0.00 +GCC 142 29.53 15.44 28.19 26.85 0.00 0.00 +GCC 143 24.66 15.07 23.97 36.30 0.00 0.00 +GCC 144 27.40 16.44 19.86 36.30 0.00 0.00 +GCC 145 29.45 13.70 19.86 36.99 0.00 0.00 +GCC 146 35.86 12.41 18.62 33.10 0.00 0.00 +GCC 147 32.87 20.98 16.08 30.07 0.00 0.00 +GCC 148 31.11 20.74 23.70 24.44 0.00 0.00 +GCC 149 33.07 14.96 19.69 32.28 0.00 0.00 +GCC 150 36.94 14.41 14.41 34.23 0.00 0.00 +GCC 151 40.82 18.37 14.29 26.53 0.00 0.00 +# ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%] +GCT 1 22.50 26.00 32.00 19.50 +GCT 2 20.00 21.50 16.00 42.50 +GCT 3 30.00 16.50 15.00 38.50 +GCT 4 21.50 26.50 12.00 40.00 +GCT 5 44.50 10.00 12.00 33.50 +GCT 6 42.50 13.50 22.50 21.50 +GCT 7 34.50 17.00 23.50 25.00 +GCT 8 37.50 22.50 21.50 18.50 +GCT 9 17.00 39.00 20.50 23.50 +GCT 10 33.00 14.50 13.50 39.00 +GCT 11 34.50 12.50 26.50 26.50 +GCT 12 27.50 14.50 22.50 35.50 +GCT 13 21.50 22.00 24.50 32.00 +GCT 14 28.00 27.50 13.00 31.50 +GCT 15 35.00 15.50 21.00 28.50 +GCT 16 36.50 24.00 17.50 22.00 +GCT 17 36.50 18.00 18.00 27.50 +GCT 18 29.50 23.50 20.00 27.00 +GCT 19 30.00 17.50 21.50 31.00 +GCT 20 30.00 19.00 19.50 31.50 +GCT 21 25.50 20.00 19.50 35.00 +GCT 22 29.00 23.00 19.00 29.00 +GCT 23 30.50 21.00 17.00 31.50 +GCT 24 30.50 22.00 17.00 30.50 +GCT 25 28.50 19.00 19.50 33.00 +GCT 26 27.50 19.00 23.00 30.50 +GCT 27 33.50 21.50 17.00 28.00 +GCT 28 28.50 23.50 20.00 28.00 +GCT 29 32.00 21.00 19.50 27.50 +GCT 30 30.50 20.50 21.00 28.00 +GCT 31 25.00 24.00 21.00 30.00 +GCT 32 37.00 17.50 16.50 29.00 +GCT 33 27.00 19.00 22.00 32.00 +GCT 34 29.50 22.00 22.50 26.00 +GCT 35 29.00 19.50 20.00 31.50 +GCT 36 37.50 17.50 15.00 30.00 +GCT 37 32.50 21.50 17.00 29.00 +GCT 38 30.00 20.50 20.00 29.50 +GCT 39 34.00 20.50 18.50 27.00 +GCT 40 27.00 22.00 19.50 31.50 +GCT 41 32.00 20.00 15.50 32.50 +GCT 42 37.50 17.00 21.00 24.50 +GCT 43 25.50 19.50 18.00 37.00 +GCT 44 31.50 18.50 18.50 31.50 +GCT 45 27.00 20.00 19.00 34.00 +GCT 46 29.00 20.50 20.50 30.00 +GCT 47 29.00 20.50 23.50 27.00 +GCT 48 27.00 21.50 18.50 33.00 +GCT 49 27.00 17.00 20.00 36.00 +GCT 50 29.00 21.00 15.50 34.50 +GCT 51 33.00 21.50 20.00 25.50 +GCT 52 30.50 21.00 20.00 28.50 +GCT 53 24.50 23.00 21.50 31.00 +GCT 54 30.15 20.60 19.60 29.65 +GCT 55 25.13 20.60 21.11 33.17 +GCT 56 26.13 21.11 17.59 35.18 +GCT 57 27.14 20.60 21.11 31.16 +GCT 58 30.15 17.59 21.61 30.65 +GCT 59 32.66 20.60 18.59 28.14 +GCT 60 31.66 18.09 21.61 28.64 +GCT 61 25.13 23.12 21.11 30.65 +GCT 62 24.62 23.12 24.62 27.64 +GCT 63 36.68 17.59 15.58 30.15 +GCT 64 35.18 16.58 20.10 28.14 +GCT 65 30.65 18.59 20.60 30.15 +GCT 66 34.67 15.58 19.60 30.15 +GCT 67 29.29 24.75 19.70 26.26 +GCT 68 28.28 21.21 21.72 28.79 +GCT 69 29.44 22.84 17.26 30.46 +GCT 70 36.22 19.90 18.88 25.00 +GCT 71 34.18 20.92 18.37 26.53 +GCT 72 32.14 17.86 16.84 33.16 +GCT 73 32.82 14.36 22.56 30.26 +GCT 74 30.26 21.54 21.03 27.18 +GCT 75 33.33 18.46 17.95 30.26 +GCT 76 29.23 23.08 17.95 29.74 +GCT 77 29.74 17.95 17.44 34.87 +GCT 78 31.25 20.83 17.19 30.73 +GCT 79 29.17 23.44 17.19 30.21 +GCT 80 35.79 21.05 17.37 25.79 +GCT 81 39.68 20.11 11.11 29.10 +GCT 82 28.04 16.93 22.22 32.80 +GCT 83 29.26 20.21 20.21 30.32 +GCT 84 35.11 18.09 19.68 27.13 +GCT 85 28.72 20.74 17.02 33.51 +GCT 86 29.79 21.28 18.62 30.32 +GCT 87 31.38 18.09 15.43 35.11 +GCT 88 28.72 21.81 21.28 28.19 +GCT 89 30.32 18.62 16.49 34.57 +GCT 90 29.95 13.90 28.88 27.27 +GCT 91 32.09 15.51 20.32 32.09 +GCT 92 26.20 18.18 20.32 35.29 +GCT 93 31.35 18.38 18.38 31.89 +GCT 94 29.73 15.68 22.70 31.89 +GCT 95 28.80 19.57 25.54 26.09 +GCT 96 32.42 20.33 14.84 32.42 +GCT 97 31.87 21.43 17.58 29.12 +GCT 98 30.77 14.29 20.33 34.62 +GCT 99 28.65 17.42 20.79 33.15 +GCT 100 28.65 14.04 20.79 36.52 +GCT 101 27.53 23.03 14.04 35.39 +GCT 102 26.70 17.05 28.41 27.84 +GCT 103 29.55 20.45 17.61 32.39 +GCT 104 34.66 22.16 14.77 28.41 +GCT 105 40.91 13.07 18.18 27.84 +GCT 106 24.57 20.57 18.86 36.00 +GCT 107 26.47 18.24 22.35 32.94 +GCT 108 31.95 17.16 19.53 31.36 +GCT 109 26.04 24.85 21.89 27.22 +GCT 110 32.54 17.75 15.38 34.32 +GCT 111 26.63 17.75 22.49 33.14 +GCT 112 27.81 23.08 23.08 26.04 +GCT 113 35.12 16.67 25.00 23.21 +GCT 114 30.95 21.43 19.64 27.98 +GCT 115 29.17 18.45 16.67 35.71 +GCT 116 30.36 17.86 22.62 29.17 +GCT 117 27.54 21.56 15.57 35.33 +GCT 118 33.13 22.89 15.66 28.31 +GCT 119 33.73 16.87 22.89 26.51 +GCT 120 26.67 13.94 21.21 38.18 +GCT 121 29.09 18.18 24.85 27.88 +GCT 122 27.27 21.21 15.76 35.76 +GCT 123 30.06 17.79 20.25 31.90 +GCT 124 28.22 22.09 23.31 26.38 +GCT 125 27.61 20.25 17.79 34.36 +GCT 126 31.06 16.77 16.77 35.40 +GCT 127 32.50 15.00 22.50 30.00 +GCT 128 25.79 18.87 23.27 32.08 +GCT 129 28.30 20.75 19.50 31.45 +GCT 130 33.12 18.47 18.47 29.94 +GCT 131 31.85 19.75 18.47 29.94 +GCT 132 30.57 22.93 18.47 28.03 +GCT 133 29.68 18.06 20.65 31.61 +GCT 134 30.97 23.23 14.84 30.97 +GCT 135 32.90 16.77 20.00 30.32 +GCT 136 29.03 19.35 22.58 29.03 +GCT 137 27.92 24.68 13.64 33.77 +GCT 138 35.06 16.88 18.83 29.22 +GCT 139 33.12 22.73 18.83 25.32 +GCT 140 34.44 22.52 21.85 21.19 +GCT 141 25.33 22.67 22.00 30.00 +GCT 142 31.54 21.48 22.15 24.83 +GCT 143 35.62 20.55 18.49 25.34 +GCT 144 25.34 14.38 21.92 38.36 +GCT 145 35.62 15.75 17.81 30.82 +GCT 146 33.79 14.48 16.55 35.17 +GCT 147 32.17 20.98 16.08 30.77 +GCT 148 26.67 23.70 20.74 28.89 +GCT 149 40.16 16.54 18.11 25.20 +GCT 150 33.33 9.91 18.92 37.84 +GCT 151 24.49 0.00 32.65 42.86 +# ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +FBC 1 20.00 26.00 32.00 22.00 0.00 0.00 +FBC 2 34.00 16.00 18.00 32.00 0.00 0.00 +FBC 3 35.00 17.00 16.00 32.00 0.00 0.00 +FBC 4 27.00 22.00 22.00 29.00 0.00 0.00 +FBC 5 33.00 10.00 14.00 43.00 0.00 0.00 +FBC 6 30.00 18.00 13.00 39.00 0.00 0.00 +FBC 7 27.00 22.00 21.00 30.00 0.00 0.00 +FBC 8 35.00 20.00 20.00 25.00 0.00 0.00 +FBC 9 23.00 34.00 23.00 20.00 0.00 0.00 +FBC 10 33.00 13.00 14.00 40.00 0.00 0.00 +FBC 11 33.00 17.00 21.00 29.00 0.00 0.00 +FBC 12 35.00 21.00 11.00 33.00 0.00 0.00 +FBC 13 31.00 20.00 21.00 28.00 0.00 0.00 +FBC 14 26.00 23.00 21.00 30.00 0.00 0.00 +FBC 15 25.00 24.00 18.00 33.00 0.00 0.00 +FBC 16 32.00 24.00 23.00 21.00 0.00 0.00 +FBC 17 27.00 13.00 21.00 39.00 0.00 0.00 +FBC 18 26.00 28.00 15.00 31.00 0.00 0.00 +FBC 19 24.00 18.00 19.00 39.00 0.00 0.00 +FBC 20 29.00 16.00 22.00 33.00 0.00 0.00 +FBC 21 21.00 20.00 13.00 46.00 0.00 0.00 +FBC 22 32.00 17.00 21.00 30.00 0.00 0.00 +FBC 23 33.00 13.00 24.00 30.00 0.00 0.00 +FBC 24 34.00 16.00 17.00 33.00 0.00 0.00 +FBC 25 27.00 18.00 22.00 33.00 0.00 0.00 +FBC 26 31.00 15.00 23.00 31.00 0.00 0.00 +FBC 27 29.00 18.00 20.00 33.00 0.00 0.00 +FBC 28 23.00 21.00 20.00 36.00 0.00 0.00 +FBC 29 26.00 14.00 24.00 36.00 0.00 0.00 +FBC 30 26.00 21.00 23.00 30.00 0.00 0.00 +FBC 31 25.00 19.00 22.00 34.00 0.00 0.00 +FBC 32 30.00 21.00 15.00 34.00 0.00 0.00 +FBC 33 31.00 16.00 22.00 31.00 0.00 0.00 +FBC 34 29.00 19.00 22.00 30.00 0.00 0.00 +FBC 35 38.00 13.00 27.00 22.00 0.00 0.00 +FBC 36 33.00 13.00 20.00 34.00 0.00 0.00 +FBC 37 32.00 14.00 18.00 36.00 0.00 0.00 +FBC 38 31.00 22.00 17.00 30.00 0.00 0.00 +FBC 39 32.00 18.00 16.00 34.00 0.00 0.00 +FBC 40 28.00 23.00 20.00 29.00 0.00 0.00 +FBC 41 41.00 14.00 16.00 29.00 0.00 0.00 +FBC 42 27.00 20.00 21.00 32.00 0.00 0.00 +FBC 43 35.00 23.00 14.00 28.00 0.00 0.00 +FBC 44 33.00 14.00 18.00 35.00 0.00 0.00 +FBC 45 30.00 18.00 19.00 33.00 0.00 0.00 +FBC 46 26.00 22.00 24.00 28.00 0.00 0.00 +FBC 47 25.00 26.00 22.00 27.00 0.00 0.00 +FBC 48 27.00 15.00 24.00 34.00 0.00 0.00 +FBC 49 23.00 20.00 21.00 36.00 0.00 0.00 +FBC 50 30.00 14.00 26.00 30.00 0.00 0.00 +FBC 51 32.00 15.00 15.00 38.00 0.00 0.00 +FBC 52 31.00 20.00 19.00 30.00 0.00 0.00 +FBC 53 28.00 17.00 28.00 27.00 0.00 0.00 +FBC 54 28.00 24.00 21.00 27.00 0.00 0.00 +FBC 55 23.00 25.00 20.00 32.00 0.00 0.00 +FBC 56 31.00 19.00 22.00 28.00 0.00 0.00 +FBC 57 33.00 19.00 18.00 30.00 0.00 0.00 +FBC 58 34.00 16.00 25.00 25.00 0.00 0.00 +FBC 59 35.00 22.00 17.00 26.00 0.00 0.00 +FBC 60 24.00 22.00 24.00 30.00 0.00 0.00 +FBC 61 22.00 25.00 27.00 26.00 0.00 0.00 +FBC 62 23.00 30.00 20.00 27.00 0.00 0.00 +FBC 63 30.00 10.00 22.00 38.00 0.00 0.00 +FBC 64 25.00 17.00 20.00 38.00 0.00 0.00 +FBC 65 25.00 24.00 21.00 30.00 0.00 0.00 +FBC 66 33.00 12.00 19.00 36.00 0.00 0.00 +FBC 67 23.00 22.00 19.00 36.00 0.00 0.00 +FBC 68 23.00 21.00 25.00 31.00 0.00 0.00 +FBC 69 31.00 17.00 24.00 28.00 0.00 0.00 +FBC 70 31.00 18.00 27.00 24.00 0.00 0.00 +FBC 71 42.00 17.00 15.00 26.00 0.00 0.00 +FBC 72 34.00 15.00 23.00 28.00 0.00 0.00 +FBC 73 31.31 23.23 19.19 26.26 0.00 0.00 +FBC 74 21.21 22.22 26.26 30.30 0.00 0.00 +FBC 75 32.32 15.15 20.20 32.32 0.00 0.00 +FBC 76 29.29 13.13 17.17 40.40 0.00 0.00 +FBC 77 26.26 18.18 21.21 34.34 0.00 0.00 +FBC 78 28.87 17.53 22.68 30.93 0.00 0.00 +FBC 79 32.99 20.62 20.62 25.77 0.00 0.00 +FBC 80 29.47 16.84 26.32 27.37 0.00 0.00 +FBC 81 32.98 12.77 12.77 41.49 0.00 0.00 +FBC 82 37.23 20.21 21.28 21.28 0.00 0.00 +FBC 83 31.91 23.40 18.09 26.60 0.00 0.00 +FBC 84 24.47 23.40 14.89 37.23 0.00 0.00 +FBC 85 36.17 18.09 20.21 25.53 0.00 0.00 +FBC 86 25.53 19.15 20.21 35.11 0.00 0.00 +FBC 87 29.79 18.09 13.83 38.30 0.00 0.00 +FBC 88 32.98 28.72 15.96 22.34 0.00 0.00 +FBC 89 24.47 20.21 15.96 39.36 0.00 0.00 +FBC 90 31.18 19.35 13.98 35.48 0.00 0.00 +FBC 91 25.81 19.35 18.28 36.56 0.00 0.00 +FBC 92 30.11 18.28 18.28 33.33 0.00 0.00 +FBC 93 28.26 13.04 20.65 38.04 0.00 0.00 +FBC 94 31.52 18.48 20.65 29.35 0.00 0.00 +FBC 95 26.37 21.98 21.98 29.67 0.00 0.00 +FBC 96 24.44 17.78 23.33 34.44 0.00 0.00 +FBC 97 17.78 17.78 21.11 43.33 0.00 0.00 +FBC 98 26.67 13.33 14.44 45.56 0.00 0.00 +FBC 99 27.27 20.45 19.32 32.95 0.00 0.00 +FBC 100 36.36 13.64 22.73 27.27 0.00 0.00 +FBC 101 40.91 15.91 17.05 26.14 0.00 0.00 +FBC 102 28.41 23.86 22.73 25.00 0.00 0.00 +FBC 103 30.68 19.32 18.18 31.82 0.00 0.00 +FBC 104 18.18 18.18 25.00 38.64 0.00 0.00 +FBC 105 30.68 10.23 19.32 39.77 0.00 0.00 +FBC 106 36.36 15.91 21.59 26.14 0.00 0.00 +FBC 107 25.58 15.12 19.77 39.53 0.00 0.00 +FBC 108 32.94 18.82 12.94 35.29 0.00 0.00 +FBC 109 28.24 29.41 17.65 24.71 0.00 0.00 +FBC 110 28.24 10.59 24.71 36.47 0.00 0.00 +FBC 111 34.12 14.12 25.88 25.88 0.00 0.00 +FBC 112 23.53 21.18 28.24 27.06 0.00 0.00 +FBC 113 21.18 21.18 23.53 34.12 0.00 0.00 +FBC 114 23.53 23.53 16.47 36.47 0.00 0.00 +FBC 115 30.59 27.06 12.94 29.41 0.00 0.00 +FBC 116 24.71 15.29 29.41 30.59 0.00 0.00 +FBC 117 29.41 27.06 12.94 30.59 0.00 0.00 +FBC 118 24.71 27.06 15.29 32.94 0.00 0.00 +FBC 119 27.06 22.35 22.35 28.24 0.00 0.00 +FBC 120 36.90 20.24 14.29 28.57 0.00 0.00 +FBC 121 33.33 20.24 15.48 30.95 0.00 0.00 +FBC 122 35.71 20.24 14.29 29.76 0.00 0.00 +FBC 123 24.10 25.30 16.87 33.73 0.00 0.00 +FBC 124 27.71 24.10 19.28 28.92 0.00 0.00 +FBC 125 26.51 16.87 19.28 37.35 0.00 0.00 +FBC 126 41.46 15.85 13.41 29.27 0.00 0.00 +FBC 127 28.05 18.29 24.39 29.27 0.00 0.00 +FBC 128 20.99 20.99 22.22 35.80 0.00 0.00 +FBC 129 22.22 13.58 22.22 41.98 0.00 0.00 +FBC 130 32.50 10.00 26.25 31.25 0.00 0.00 +FBC 131 26.25 15.00 26.25 32.50 0.00 0.00 +FBC 132 30.00 18.75 21.25 30.00 0.00 0.00 +FBC 133 32.91 20.25 17.72 29.11 0.00 0.00 +FBC 134 29.11 15.19 25.32 30.38 0.00 0.00 +FBC 135 31.65 18.99 18.99 30.38 0.00 0.00 +FBC 136 34.18 18.99 25.32 21.52 0.00 0.00 +FBC 137 29.11 10.13 25.32 35.44 0.00 0.00 +FBC 138 25.32 24.05 17.72 32.91 0.00 0.00 +FBC 139 25.32 25.32 18.99 30.38 0.00 0.00 +FBC 140 29.87 24.68 19.48 25.97 0.00 0.00 +FBC 141 29.87 22.08 18.18 29.87 0.00 0.00 +FBC 142 27.63 15.79 30.26 26.32 0.00 0.00 +FBC 143 27.03 18.92 24.32 29.73 0.00 0.00 +FBC 144 28.38 18.92 18.92 33.78 0.00 0.00 +FBC 145 32.43 16.22 14.86 36.49 0.00 0.00 +FBC 146 36.49 13.51 16.22 33.78 0.00 0.00 +FBC 147 34.72 22.22 13.89 29.17 0.00 0.00 +FBC 148 26.87 20.90 26.87 25.37 0.00 0.00 +FBC 149 31.25 12.50 25.00 31.25 0.00 0.00 +FBC 150 32.73 16.36 10.91 40.00 0.00 0.00 +FBC 151 48.28 17.24 13.79 20.69 0.00 0.00 +# ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +FTC 4077 2634 2796 4390 0 +# ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +LBC 1 19.00 27.00 31.00 23.00 0.00 0.00 +LBC 2 27.00 25.00 16.00 32.00 0.00 0.00 +LBC 3 29.00 13.00 17.00 41.00 0.00 0.00 +LBC 4 34.00 20.00 13.00 33.00 0.00 0.00 +LBC 5 46.00 9.00 11.00 34.00 0.00 0.00 +LBC 6 26.00 17.00 24.00 33.00 0.00 0.00 +LBC 7 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 8 24.00 22.00 26.00 28.00 0.00 0.00 +LBC 9 21.00 31.00 31.00 17.00 0.00 0.00 +LBC 10 39.00 11.00 18.00 32.00 0.00 0.00 +LBC 11 23.00 20.00 20.00 37.00 0.00 0.00 +LBC 12 32.00 21.00 21.00 26.00 0.00 0.00 +LBC 13 25.00 18.00 34.00 23.00 0.00 0.00 +LBC 14 23.00 20.00 17.00 40.00 0.00 0.00 +LBC 15 34.00 9.00 22.00 35.00 0.00 0.00 +LBC 16 30.00 16.00 20.00 34.00 0.00 0.00 +LBC 17 28.00 20.00 18.00 34.00 0.00 0.00 +LBC 18 35.00 20.00 24.00 21.00 0.00 0.00 +LBC 19 23.00 25.00 16.00 36.00 0.00 0.00 +LBC 20 34.00 18.00 21.00 27.00 0.00 0.00 +LBC 21 31.00 24.00 22.00 23.00 0.00 0.00 +LBC 22 29.00 21.00 25.00 25.00 0.00 0.00 +LBC 23 30.00 18.00 21.00 31.00 0.00 0.00 +LBC 24 30.00 20.00 25.00 25.00 0.00 0.00 +LBC 25 28.00 15.00 22.00 35.00 0.00 0.00 +LBC 26 24.00 22.00 24.00 30.00 0.00 0.00 +LBC 27 28.00 20.00 19.00 33.00 0.00 0.00 +LBC 28 22.00 21.00 25.00 32.00 0.00 0.00 +LBC 29 28.00 23.00 20.00 29.00 0.00 0.00 +LBC 30 35.00 19.00 20.00 26.00 0.00 0.00 +LBC 31 24.00 23.00 26.00 27.00 0.00 0.00 +LBC 32 35.00 14.00 18.00 33.00 0.00 0.00 +LBC 33 26.00 16.00 28.00 30.00 0.00 0.00 +LBC 34 29.00 23.00 25.00 23.00 0.00 0.00 +LBC 35 27.00 24.00 15.00 34.00 0.00 0.00 +LBC 36 37.00 12.00 20.00 31.00 0.00 0.00 +LBC 37 21.00 26.00 19.00 34.00 0.00 0.00 +LBC 38 23.00 20.00 22.00 35.00 0.00 0.00 +LBC 39 30.00 22.00 22.00 26.00 0.00 0.00 +LBC 40 27.00 17.00 23.00 33.00 0.00 0.00 +LBC 41 33.00 19.00 22.00 26.00 0.00 0.00 +LBC 42 26.00 19.00 16.00 39.00 0.00 0.00 +LBC 43 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 44 30.00 18.00 24.00 28.00 0.00 0.00 +LBC 45 27.00 20.00 21.00 32.00 0.00 0.00 +LBC 46 23.00 25.00 11.00 41.00 0.00 0.00 +LBC 47 20.00 23.00 17.00 40.00 0.00 0.00 +LBC 48 28.00 20.00 21.00 31.00 0.00 0.00 +LBC 49 34.00 14.00 19.00 33.00 0.00 0.00 +LBC 50 34.00 19.00 14.00 33.00 0.00 0.00 +LBC 51 23.00 26.00 27.00 24.00 0.00 0.00 +LBC 52 24.00 23.00 20.00 33.00 0.00 0.00 +LBC 53 24.00 21.00 23.00 32.00 0.00 0.00 +LBC 54 33.33 23.23 12.12 31.31 0.00 0.00 +LBC 55 36.36 18.18 20.20 25.25 0.00 0.00 +LBC 56 33.33 14.14 22.22 30.30 0.00 0.00 +LBC 57 24.24 22.22 24.24 29.29 0.00 0.00 +LBC 58 25.25 13.13 24.24 37.37 0.00 0.00 +LBC 59 27.27 21.21 18.18 33.33 0.00 0.00 +LBC 60 33.33 13.13 20.20 33.33 0.00 0.00 +LBC 61 28.28 18.18 18.18 35.35 0.00 0.00 +LBC 62 31.31 22.22 23.23 23.23 0.00 0.00 +LBC 63 28.28 19.19 15.15 37.37 0.00 0.00 +LBC 64 33.33 13.13 23.23 30.30 0.00 0.00 +LBC 65 32.32 16.16 17.17 34.34 0.00 0.00 +LBC 66 30.30 26.26 13.13 30.30 0.00 0.00 +LBC 67 26.53 18.37 29.59 25.51 0.00 0.00 +LBC 68 30.61 18.37 21.43 29.59 0.00 0.00 +LBC 69 30.93 17.53 21.65 29.90 0.00 0.00 +LBC 70 36.46 15.62 16.67 31.25 0.00 0.00 +LBC 71 28.12 23.96 22.92 25.00 0.00 0.00 +LBC 72 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 73 33.33 13.54 17.71 35.42 0.00 0.00 +LBC 74 34.38 14.58 21.88 29.17 0.00 0.00 +LBC 75 32.29 14.58 22.92 30.21 0.00 0.00 +LBC 76 19.79 27.08 25.00 28.12 0.00 0.00 +LBC 77 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 78 20.00 24.21 11.58 44.21 0.00 0.00 +LBC 79 33.68 21.05 18.95 26.32 0.00 0.00 +LBC 80 32.63 15.79 17.89 33.68 0.00 0.00 +LBC 81 33.68 18.95 17.89 29.47 0.00 0.00 +LBC 82 26.32 18.95 17.89 36.84 0.00 0.00 +LBC 83 28.72 20.21 19.15 31.91 0.00 0.00 +LBC 84 30.85 20.21 17.02 31.91 0.00 0.00 +LBC 85 15.96 12.77 24.47 46.81 0.00 0.00 +LBC 86 24.47 17.02 23.40 35.11 0.00 0.00 +LBC 87 31.91 18.09 17.02 32.98 0.00 0.00 +LBC 88 31.91 21.28 20.21 26.60 0.00 0.00 +LBC 89 24.47 10.64 23.40 41.49 0.00 0.00 +LBC 90 23.40 24.47 27.66 24.47 0.00 0.00 +LBC 91 30.85 10.64 23.40 35.11 0.00 0.00 +LBC 92 26.60 18.09 22.34 32.98 0.00 0.00 +LBC 93 29.03 23.66 16.13 31.18 0.00 0.00 +LBC 94 26.88 17.20 20.43 35.48 0.00 0.00 +LBC 95 29.03 25.81 20.43 24.73 0.00 0.00 +LBC 96 38.04 19.57 9.78 32.61 0.00 0.00 +LBC 97 26.09 17.39 21.74 34.78 0.00 0.00 +LBC 98 28.26 18.48 22.83 30.43 0.00 0.00 +LBC 99 27.78 20.00 16.67 35.56 0.00 0.00 +LBC 100 33.33 16.67 16.67 33.33 0.00 0.00 +LBC 101 32.22 17.78 23.33 26.67 0.00 0.00 +LBC 102 30.68 20.45 23.86 25.00 0.00 0.00 +LBC 103 25.00 18.18 20.45 36.36 0.00 0.00 +LBC 104 34.09 11.36 19.32 35.23 0.00 0.00 +LBC 105 36.36 12.50 20.45 30.68 0.00 0.00 +LBC 106 19.54 24.14 17.24 39.08 0.00 0.00 +LBC 107 26.19 17.86 28.57 27.38 0.00 0.00 +LBC 108 28.57 22.62 19.05 29.76 0.00 0.00 +LBC 109 25.00 30.95 15.48 28.57 0.00 0.00 +LBC 110 27.38 8.33 22.62 41.67 0.00 0.00 +LBC 111 26.19 19.05 21.43 33.33 0.00 0.00 +LBC 112 33.33 21.43 21.43 23.81 0.00 0.00 +LBC 113 36.14 18.07 20.48 25.30 0.00 0.00 +LBC 114 39.76 22.89 19.28 18.07 0.00 0.00 +LBC 115 39.76 12.05 18.07 30.12 0.00 0.00 +LBC 116 28.92 20.48 15.66 34.94 0.00 0.00 +LBC 117 40.24 18.29 15.85 25.61 0.00 0.00 +LBC 118 29.63 19.75 14.81 35.80 0.00 0.00 +LBC 119 37.04 16.05 18.52 28.40 0.00 0.00 +LBC 120 33.33 13.58 22.22 30.86 0.00 0.00 +LBC 121 19.75 29.63 20.99 29.63 0.00 0.00 +LBC 122 32.10 14.81 24.69 28.40 0.00 0.00 +LBC 123 35.00 13.75 20.00 31.25 0.00 0.00 +LBC 124 21.25 20.00 27.50 31.25 0.00 0.00 +LBC 125 30.00 17.50 22.50 30.00 0.00 0.00 +LBC 126 40.51 18.99 18.99 21.52 0.00 0.00 +LBC 127 29.49 17.95 14.10 38.46 0.00 0.00 +LBC 128 29.49 23.08 17.95 29.49 0.00 0.00 +LBC 129 24.36 20.51 24.36 30.77 0.00 0.00 +LBC 130 33.77 15.58 22.08 28.57 0.00 0.00 +LBC 131 24.68 18.18 16.88 40.26 0.00 0.00 +LBC 132 32.47 19.48 23.38 24.68 0.00 0.00 +LBC 133 28.95 18.42 21.05 31.58 0.00 0.00 +LBC 134 36.84 14.47 21.05 27.63 0.00 0.00 +LBC 135 32.89 18.42 17.11 31.58 0.00 0.00 +LBC 136 34.21 19.74 19.74 26.32 0.00 0.00 +LBC 137 25.33 26.67 14.67 33.33 0.00 0.00 +LBC 138 36.00 12.00 17.33 34.67 0.00 0.00 +LBC 139 28.00 18.67 20.00 33.33 0.00 0.00 +LBC 140 25.68 24.32 20.27 29.73 0.00 0.00 +LBC 141 26.03 24.66 24.66 24.66 0.00 0.00 +LBC 142 31.51 15.07 26.03 27.40 0.00 0.00 +LBC 143 22.22 11.11 23.61 43.06 0.00 0.00 +LBC 144 26.39 13.89 20.83 38.89 0.00 0.00 +LBC 145 26.39 11.11 25.00 37.50 0.00 0.00 +LBC 146 35.21 11.27 21.13 32.39 0.00 0.00 +LBC 147 30.99 19.72 18.31 30.99 0.00 0.00 +LBC 148 35.29 20.59 20.59 23.53 0.00 0.00 +LBC 149 34.92 17.46 14.29 33.33 0.00 0.00 +LBC 150 41.07 12.50 17.86 28.57 0.00 0.00 +LBC 151 30.00 20.00 15.00 35.00 0.00 0.00 +# ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +LTC 4051 2592 2808 4297 0 +# Insert sizes. Use `grep ^IS | cut -f 2-` to extract this part. The columns are: insert size, pairs total, inward oriented pairs, outward oriented pairs, other pairs +IS 0 0 0 0 0 +IS 1 0 0 0 0 +IS 2 0 0 0 0 +IS 3 0 0 0 0 +IS 4 0 0 0 0 +IS 5 0 0 0 0 +IS 6 0 0 0 0 +IS 7 0 0 0 0 +IS 8 0 0 0 0 +IS 9 0 0 0 0 +IS 10 0 0 0 0 +IS 11 0 0 0 0 +IS 12 0 0 0 0 +IS 13 0 0 0 0 +IS 14 0 0 0 0 +IS 15 0 0 0 0 +IS 16 0 0 0 0 +IS 17 0 0 0 0 +IS 18 0 0 0 0 +IS 19 0 0 0 0 +IS 20 0 0 0 0 +IS 21 0 0 0 0 +IS 22 0 0 0 0 +IS 23 0 0 0 0 +IS 24 0 0 0 0 +IS 25 0 0 0 0 +IS 26 0 0 0 0 +IS 27 0 0 0 0 +IS 28 0 0 0 0 +IS 29 0 0 0 0 +IS 30 0 0 0 0 +IS 31 0 0 0 0 +IS 32 0 0 0 0 +IS 33 0 0 0 0 +IS 34 0 0 0 0 +IS 35 0 0 0 0 +IS 36 0 0 0 0 +IS 37 0 0 0 0 +IS 38 0 0 0 0 +IS 39 0 0 0 0 +IS 40 0 0 0 0 +IS 41 0 0 0 0 +IS 42 0 0 0 0 +IS 43 0 0 0 0 +IS 44 0 0 0 0 +IS 45 0 0 0 0 +IS 46 0 0 0 0 +IS 47 0 0 0 0 +IS 48 0 0 0 0 +IS 49 0 0 0 0 +IS 50 0 0 0 0 +IS 51 0 0 0 0 +IS 52 0 0 0 0 +IS 53 0 0 0 0 +IS 54 0 0 0 0 +IS 55 0 0 0 0 +IS 56 0 0 0 0 +IS 57 0 0 0 0 +IS 58 0 0 0 0 +IS 59 0 0 0 0 +IS 60 0 0 0 0 +IS 61 0 0 0 0 +IS 62 0 0 0 0 +IS 63 0 0 0 0 +IS 64 0 0 0 0 +IS 65 0 0 0 0 +IS 66 0 0 0 0 +IS 67 0 0 0 0 +IS 68 0 0 0 0 +IS 69 0 0 0 0 +IS 70 0 0 0 0 +IS 71 0 0 0 0 +IS 72 0 0 0 0 +IS 73 0 0 0 0 +IS 74 0 0 0 0 +IS 75 0 0 0 0 +IS 76 0 0 0 0 +IS 77 1 0 1 0 +IS 78 0 0 0 0 +IS 79 0 0 0 0 +IS 80 0 0 0 0 +IS 81 0 0 0 0 +IS 82 1 1 0 0 +IS 83 0 0 0 0 +IS 84 0 0 0 0 +IS 85 0 0 0 0 +IS 86 1 1 0 0 +IS 87 0 0 0 0 +IS 88 0 0 0 0 +IS 89 0 0 0 0 +IS 90 0 0 0 0 +IS 91 0 0 0 0 +IS 92 1 1 0 0 +IS 93 0 0 0 0 +IS 94 0 0 0 0 +IS 95 0 0 0 0 +IS 96 0 0 0 0 +IS 97 0 0 0 0 +IS 98 2 1 1 0 +IS 99 0 0 0 0 +IS 100 0 0 0 0 +IS 101 0 0 0 0 +IS 102 0 0 0 0 +IS 103 0 0 0 0 +IS 104 0 0 0 0 +IS 105 0 0 0 0 +IS 106 2 1 1 0 +IS 107 1 1 0 0 +IS 108 0 0 0 0 +IS 109 0 0 0 0 +IS 110 0 0 0 0 +IS 111 0 0 0 0 +IS 112 1 1 0 0 +IS 113 0 0 0 0 +IS 114 0 0 0 0 +IS 115 0 0 0 0 +IS 116 0 0 0 0 +IS 117 0 0 0 0 +IS 118 1 1 0 0 +IS 119 0 0 0 0 +IS 120 0 0 0 0 +IS 121 0 0 0 0 +IS 122 1 0 1 0 +IS 123 0 0 0 0 +IS 124 0 0 0 0 +IS 125 1 0 1 0 +IS 126 0 0 0 0 +IS 127 1 0 1 0 +IS 128 0 0 0 0 +IS 129 1 0 1 0 +IS 130 0 0 0 0 +IS 131 0 0 0 0 +IS 132 1 1 0 0 +IS 133 0 0 0 0 +IS 134 0 0 0 0 +IS 135 0 0 0 0 +IS 136 0 0 0 0 +IS 137 0 0 0 0 +IS 138 0 0 0 0 +IS 139 1 1 0 0 +IS 140 1 1 0 0 +IS 141 0 0 0 0 +IS 142 1 0 1 0 +IS 143 0 0 0 0 +IS 144 0 0 0 0 +IS 145 0 0 0 0 +IS 146 0 0 0 0 +IS 147 1 1 0 0 +IS 148 1 0 1 0 +IS 149 0 0 0 0 +IS 150 1 1 0 0 +IS 151 0 0 0 0 +IS 152 0 0 0 0 +IS 153 0 0 0 0 +IS 154 0 0 0 0 +IS 155 0 0 0 0 +IS 156 0 0 0 0 +IS 157 0 0 0 0 +IS 158 1 1 0 0 +IS 159 3 3 0 0 +IS 160 0 0 0 0 +IS 161 0 0 0 0 +IS 162 0 0 0 0 +IS 163 0 0 0 0 +IS 164 0 0 0 0 +IS 165 0 0 0 0 +IS 166 2 2 0 0 +IS 167 0 0 0 0 +IS 168 2 2 0 0 +IS 169 0 0 0 0 +IS 170 0 0 0 0 +IS 171 1 1 0 0 +IS 172 1 1 0 0 +IS 173 0 0 0 0 +IS 174 1 1 0 0 +IS 175 0 0 0 0 +IS 176 0 0 0 0 +IS 177 1 1 0 0 +IS 178 1 1 0 0 +IS 179 0 0 0 0 +IS 180 2 2 0 0 +IS 181 0 0 0 0 +IS 182 0 0 0 0 +IS 183 0 0 0 0 +IS 184 0 0 0 0 +IS 185 1 1 0 0 +IS 186 0 0 0 0 +IS 187 1 1 0 0 +IS 188 0 0 0 0 +IS 189 1 1 0 0 +IS 190 0 0 0 0 +IS 191 1 1 0 0 +IS 192 0 0 0 0 +IS 193 0 0 0 0 +IS 194 0 0 0 0 +IS 195 1 1 0 0 +IS 196 0 0 0 0 +IS 197 1 1 0 0 +IS 198 1 1 0 0 +IS 199 0 0 0 0 +IS 200 0 0 0 0 +IS 201 2 2 0 0 +IS 202 1 1 0 0 +IS 203 0 0 0 0 +IS 204 1 1 0 0 +IS 205 0 0 0 0 +IS 206 0 0 0 0 +IS 207 0 0 0 0 +IS 208 0 0 0 0 +IS 209 1 1 0 0 +IS 210 0 0 0 0 +IS 211 0 0 0 0 +IS 212 0 0 0 0 +IS 213 0 0 0 0 +IS 214 1 1 0 0 +IS 215 0 0 0 0 +IS 216 0 0 0 0 +IS 217 0 0 0 0 +IS 218 1 1 0 0 +IS 219 1 1 0 0 +IS 220 0 0 0 0 +IS 221 0 0 0 0 +IS 222 1 1 0 0 +IS 223 0 0 0 0 +IS 224 0 0 0 0 +IS 225 0 0 0 0 +IS 226 0 0 0 0 +IS 227 1 1 0 0 +IS 228 0 0 0 0 +IS 229 0 0 0 0 +IS 230 0 0 0 0 +IS 231 1 1 0 0 +IS 232 1 1 0 0 +IS 233 1 1 0 0 +IS 234 2 2 0 0 +IS 235 3 3 0 0 +IS 236 1 1 0 0 +IS 237 0 0 0 0 +IS 238 2 2 0 0 +IS 239 0 0 0 0 +IS 240 1 1 0 0 +IS 241 0 0 0 0 +IS 242 0 0 0 0 +IS 243 0 0 0 0 +IS 244 1 1 0 0 +IS 245 1 1 0 0 +IS 246 1 1 0 0 +IS 247 2 2 0 0 +IS 248 0 0 0 0 +IS 249 1 1 0 0 +IS 250 0 0 0 0 +IS 251 1 1 0 0 +IS 252 0 0 0 0 +IS 253 0 0 0 0 +IS 254 1 1 0 0 +IS 255 1 1 0 0 +IS 256 0 0 0 0 +IS 257 0 0 0 0 +IS 258 0 0 0 0 +IS 259 1 1 0 0 +IS 260 0 0 0 0 +IS 261 0 0 0 0 +IS 262 0 0 0 0 +IS 263 0 0 0 0 +IS 264 0 0 0 0 +IS 265 0 0 0 0 +IS 266 1 1 0 0 +IS 267 1 1 0 0 +IS 268 1 1 0 0 +IS 269 0 0 0 0 +IS 270 0 0 0 0 +IS 271 0 0 0 0 +IS 272 2 2 0 0 +IS 273 0 0 0 0 +IS 274 0 0 0 0 +IS 275 0 0 0 0 +IS 276 1 1 0 0 +IS 277 0 0 0 0 +IS 278 1 1 0 0 +IS 279 0 0 0 0 +IS 280 0 0 0 0 +IS 281 1 1 0 0 +IS 282 1 1 0 0 +IS 283 0 0 0 0 +IS 284 1 1 0 0 +IS 285 0 0 0 0 +IS 286 0 0 0 0 +IS 287 0 0 0 0 +IS 288 0 0 0 0 +IS 289 0 0 0 0 +IS 290 0 0 0 0 +IS 291 1 1 0 0 +IS 292 0 0 0 0 +IS 293 0 0 0 0 +IS 294 1 1 0 0 +IS 295 0 0 0 0 +IS 296 0 0 0 0 +IS 297 0 0 0 0 +IS 298 0 0 0 0 +IS 299 0 0 0 0 +IS 300 0 0 0 0 +IS 301 0 0 0 0 +IS 302 0 0 0 0 +IS 303 0 0 0 0 +IS 304 1 1 0 0 +IS 305 1 1 0 0 +IS 306 0 0 0 0 +IS 307 0 0 0 0 +IS 308 0 0 0 0 +IS 309 0 0 0 0 +IS 310 1 1 0 0 +IS 311 0 0 0 0 +IS 312 0 0 0 0 +IS 313 0 0 0 0 +IS 314 1 1 0 0 +IS 315 0 0 0 0 +IS 316 0 0 0 0 +IS 317 0 0 0 0 +IS 318 1 1 0 0 +IS 319 0 0 0 0 +IS 320 1 1 0 0 +IS 321 0 0 0 0 +IS 322 0 0 0 0 +IS 323 0 0 0 0 +IS 324 0 0 0 0 +IS 325 0 0 0 0 +IS 326 0 0 0 0 +IS 327 0 0 0 0 +IS 328 0 0 0 0 +IS 329 0 0 0 0 +IS 330 0 0 0 0 +IS 331 0 0 0 0 +IS 332 0 0 0 0 +IS 333 0 0 0 0 +IS 334 0 0 0 0 +IS 335 0 0 0 0 +IS 336 0 0 0 0 +IS 337 0 0 0 0 +IS 338 0 0 0 0 +IS 339 1 1 0 0 +IS 340 0 0 0 0 +IS 341 0 0 0 0 +IS 342 0 0 0 0 +IS 343 1 1 0 0 +IS 344 0 0 0 0 +IS 345 0 0 0 0 +IS 346 0 0 0 0 +IS 347 0 0 0 0 +IS 348 0 0 0 0 +IS 349 0 0 0 0 +IS 350 0 0 0 0 +IS 351 0 0 0 0 +IS 352 0 0 0 0 +IS 353 0 0 0 0 +IS 354 0 0 0 0 +IS 355 0 0 0 0 +IS 356 0 0 0 0 +IS 357 0 0 0 0 +IS 358 0 0 0 0 +IS 359 0 0 0 0 +IS 360 0 0 0 0 +IS 361 0 0 0 0 +IS 362 0 0 0 0 +IS 363 0 0 0 0 +IS 364 1 1 0 0 +# Read lengths. Use `grep ^RL | cut -f 2-` to extract this part. The columns are: read length, count +RL 53 1 +RL 66 1 +RL 68 1 +RL 69 1 +RL 72 1 +RL 77 3 +RL 79 2 +RL 80 1 +RL 82 1 +RL 89 1 +RL 92 2 +RL 94 1 +RL 95 2 +RL 98 4 +RL 101 2 +RL 105 1 +RL 106 5 +RL 107 1 +RL 112 1 +RL 116 1 +RL 117 1 +RL 119 1 +RL 122 2 +RL 125 2 +RL 126 1 +RL 127 1 +RL 129 2 +RL 132 2 +RL 136 1 +RL 139 3 +RL 140 1 +RL 141 1 +RL 142 3 +RL 145 1 +RL 146 2 +RL 147 8 +RL 148 8 +RL 149 16 +RL 150 62 +RL 151 49 +# Read lengths - first fragments. Use `grep ^FRL | cut -f 2-` to extract this part. The columns are: read length, count +FRL 72 1 +FRL 77 2 +FRL 79 2 +FRL 80 1 +FRL 89 1 +FRL 92 1 +FRL 94 1 +FRL 95 1 +FRL 98 2 +FRL 106 2 +FRL 107 1 +FRL 119 1 +FRL 122 1 +FRL 125 1 +FRL 127 1 +FRL 129 1 +FRL 132 1 +FRL 139 2 +FRL 141 1 +FRL 142 2 +FRL 146 2 +FRL 147 5 +FRL 148 3 +FRL 149 9 +FRL 150 26 +FRL 151 29 +# Read lengths - last fragments. Use `grep ^LRL | cut -f 2-` to extract this part. The columns are: read length, count +LRL 53 1 +LRL 66 1 +LRL 68 1 +LRL 69 1 +LRL 77 1 +LRL 82 1 +LRL 92 1 +LRL 95 1 +LRL 98 2 +LRL 101 2 +LRL 105 1 +LRL 106 3 +LRL 112 1 +LRL 116 1 +LRL 117 1 +LRL 122 1 +LRL 125 1 +LRL 126 1 +LRL 129 1 +LRL 132 1 +LRL 136 1 +LRL 139 1 +LRL 140 1 +LRL 142 1 +LRL 145 1 +LRL 147 3 +LRL 148 5 +LRL 149 7 +LRL 150 36 +LRL 151 20 +# Mapping qualities for reads !(UNMAP|SECOND|SUPPL|QCFAIL|DUP). Use `grep ^MAPQ | cut -f 2-` to extract this part. The columns are: mapq, count +MAPQ 1 1 +MAPQ 36 1 +MAPQ 37 1 +MAPQ 38 2 +MAPQ 48 14 +MAPQ 49 1 +MAPQ 50 5 +MAPQ 51 1 +MAPQ 52 1 +MAPQ 55 2 +MAPQ 57 1 +MAPQ 59 1 +MAPQ 60 166 +# Indel distribution. Use `grep ^ID | cut -f 2-` to extract this part. The columns are: length, number of insertions, number of deletions +ID 1 0 8 +ID 2 0 1 +ID 32 0 1 +# Indels per cycle. Use `grep ^IC | cut -f 2-` to extract this part. The columns are: cycle, number of insertions (fwd), .. (rev) , number of deletions (fwd), .. (rev) +IC 5 0 0 1 0 +IC 7 0 0 1 1 +IC 72 0 0 1 0 +IC 85 0 0 1 0 +IC 97 0 0 1 0 +IC 107 0 0 0 1 +IC 121 0 0 0 1 +IC 135 0 0 0 1 +IC 137 0 0 1 0 +# Coverage distribution. Use `grep ^COV | cut -f 2-` to extract this part. +COV [1-1] 1 8276 +COV [2-2] 2 2632 +COV [3-3] 3 1381 +COV [4-4] 4 365 +COV [5-5] 5 137 +COV [6-6] 6 60 +# GC-depth. Use `grep ^GCD | cut -f 2-` to extract this part. The columns are: GC%, unique sequence percentiles, 10th, 25th, 50th, 75th and 90th depth percentile +GCD 0.0 66.667 0.000 0.000 0.000 0.000 0.000 +GCD 19.2 100.000 0.318 0.318 0.318 0.318 0.318 diff --git a/src/samtools/samtools_stats/test_data/ref.paired_end.sorted.txt b/src/samtools/samtools_stats/test_data/ref.paired_end.sorted.txt new file mode 100644 index 00000000..7a1cda92 --- /dev/null +++ b/src/samtools/samtools_stats/test_data/ref.paired_end.sorted.txt @@ -0,0 +1,1539 @@ +# This file was produced by samtools stats (1.19.2+htslib-1.19.1) and can be plotted using plot-bamstats +# This file contains statistics for all reads. +# The command line was: stats test_data/test.paired_end.sorted.bam +# CHK, Checksum [2]Read Names [3]Sequences [4]Qualities +# CHK, CRC32 of reads which passed filtering followed by addition (32bit overflow) +CHK 696e2242 1799722a a8072f55 +# Summary Numbers. Use `grep ^SN | cut -f 2-` to extract this part. +SN raw total sequences: 200 # excluding supplementary and secondary reads +SN filtered sequences: 0 +SN sequences: 200 +SN is sorted: 1 +SN 1st fragments: 100 +SN last fragments: 100 +SN reads mapped: 197 +SN reads mapped and paired: 194 # paired-end technology bit set + both mates mapped +SN reads unmapped: 3 +SN reads properly paired: 192 # proper-pair bit set +SN reads paired: 200 # paired-end technology bit set +SN reads duplicated: 0 # PCR or optical duplicate bit set +SN reads MQ0: 0 # mapped and MQ=0 +SN reads QC failed: 0 +SN non-primary alignments: 0 +SN supplementary alignments: 0 +SN total length: 27645 # ignores clipping +SN total first fragment length: 13897 # ignores clipping +SN total last fragment length: 13748 # ignores clipping +SN bases mapped: 27423 # ignores clipping +SN bases mapped (cigar): 27401 # more accurate +SN bases trimmed: 0 +SN bases duplicated: 0 +SN mismatches: 140 # from NM fields +SN error rate: 5.109303e-03 # mismatches / bases mapped (cigar) +SN average length: 138 +SN average first fragment length: 139 +SN average last fragment length: 137 +SN maximum length: 151 +SN maximum first fragment length: 151 +SN maximum last fragment length: 151 +SN average quality: 33.3 +SN insert size average: 207.7 +SN insert size standard deviation: 66.4 +SN inward oriented pairs: 88 +SN outward oriented pairs: 9 +SN pairs with other orientation: 0 +SN pairs on different chromosomes: 0 +SN percentage of properly paired reads (%): 96.0 +# First Fragment Qualities. Use `grep ^FFQ | cut -f 2-` to extract this part. +# Columns correspond to qualities and rows to cycles. First column is the cycle number. +FFQ 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 +FFQ 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 +FFQ 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 0 0 0 +FFQ 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 94 0 0 0 1 0 +FFQ 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 93 0 0 0 0 0 +FFQ 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 7 0 0 0 86 0 +FFQ 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 7 0 0 0 84 0 +FFQ 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 2 0 0 0 0 0 1 0 0 0 0 12 0 0 0 83 0 +FFQ 9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0 85 0 +FFQ 10 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 1 0 0 0 0 5 0 0 0 87 0 +FFQ 11 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 90 0 +FFQ 12 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 6 0 0 0 88 0 +FFQ 13 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 8 0 0 0 84 0 +FFQ 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 6 0 0 0 86 0 +FFQ 15 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 15 0 0 0 83 0 +FFQ 16 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 2 0 0 0 90 0 +FFQ 17 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 6 0 0 0 86 0 +FFQ 18 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 93 0 +FFQ 19 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 2 0 0 0 86 0 +FFQ 20 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 3 0 0 0 0 0 1 0 0 0 0 4 0 0 0 85 0 +FFQ 21 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 95 0 +FFQ 22 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 91 0 +FFQ 23 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 90 0 +FFQ 24 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 1 0 0 0 90 0 +FFQ 25 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 85 0 +FFQ 26 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 6 0 0 0 87 0 +FFQ 27 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 5 0 0 0 87 0 +FFQ 28 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 88 0 +FFQ 29 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 4 0 0 0 90 0 +FFQ 30 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 7 0 0 0 87 0 +FFQ 31 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 4 0 0 0 0 0 2 0 0 0 0 3 0 0 0 85 0 +FFQ 32 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 6 0 0 0 89 0 +FFQ 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 7 0 0 0 84 0 +FFQ 34 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 8 0 0 0 89 0 +FFQ 35 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 88 0 +FFQ 36 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 8 0 0 0 85 0 +FFQ 37 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 2 0 0 0 0 0 2 0 0 0 0 4 0 0 0 87 0 +FFQ 38 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 4 0 0 0 91 0 +FFQ 39 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 6 0 0 0 86 0 +FFQ 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 3 0 0 0 90 0 +FFQ 41 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 9 0 0 0 85 0 +FFQ 42 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 5 0 0 0 88 0 +FFQ 43 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 2 0 0 0 0 0 1 0 0 0 0 4 0 0 0 83 0 +FFQ 44 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 8 0 0 0 83 0 +FFQ 45 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 6 0 0 0 86 0 +FFQ 46 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 9 0 0 0 85 0 +FFQ 47 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 2 0 0 0 0 0 2 0 0 0 0 10 0 0 0 77 0 +FFQ 48 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 12 0 0 0 80 0 +FFQ 49 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 8 0 0 0 79 0 +FFQ 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 10 0 0 0 81 0 +FFQ 51 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 12 0 0 0 83 0 +FFQ 52 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 12 0 0 0 80 0 +FFQ 53 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 15 0 0 0 77 0 +FFQ 54 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 2 0 0 0 0 0 7 0 0 0 0 12 0 0 0 72 0 +FFQ 55 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 8 0 0 0 82 0 +FFQ 56 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 9 0 0 0 80 0 +FFQ 57 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 2 0 0 0 0 13 0 0 0 77 0 +FFQ 58 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 3 0 0 0 0 0 3 0 0 0 0 11 0 0 0 76 0 +FFQ 59 0 0 0 0 0 0 0 0 0 0 0 0 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0 8 0 0 0 0 0 0 3 0 0 0 0 0 8 0 0 0 0 19 0 0 0 36 0 +LFQ 141 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 3 0 0 0 0 0 6 0 0 0 0 22 0 0 0 38 0 +LFQ 142 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 20 0 0 0 35 0 +LFQ 143 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 3 0 0 0 0 0 9 0 0 0 0 17 0 0 0 35 0 +LFQ 144 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 22 0 0 0 38 0 +LFQ 145 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 1 0 0 0 0 0 5 0 0 0 0 20 0 0 0 38 0 +LFQ 146 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 3 0 0 0 0 0 7 0 0 0 0 23 0 0 0 35 0 +LFQ 147 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 0 0 0 0 0 8 0 0 0 0 31 0 0 0 28 0 +LFQ 148 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 1 0 0 0 0 0 9 0 0 0 0 23 0 0 0 28 0 +LFQ 149 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 0 0 1 0 0 0 0 0 1 0 0 0 0 19 0 0 0 29 0 +LFQ 150 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 23 0 0 0 30 0 +LFQ 151 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 4 0 +# GC Content of first fragments. Use `grep ^GCF | cut -f 2-` to extract this part. +GCF 15.08 0 +GCF 30.40 1 +GCF 31.16 2 +GCF 32.16 0 +GCF 33.17 2 +GCF 33.92 5 +GCF 34.42 4 +GCF 34.92 2 +GCF 35.43 3 +GCF 35.93 7 +GCF 36.43 9 +GCF 36.93 4 +GCF 37.44 7 +GCF 37.94 8 +GCF 38.44 10 +GCF 38.94 7 +GCF 39.70 6 +GCF 40.45 8 +GCF 40.95 9 +GCF 41.71 4 +GCF 42.46 5 +GCF 42.96 7 +GCF 43.72 2 +GCF 44.72 1 +GCF 45.48 3 +GCF 46.48 2 +GCF 47.74 1 +GCF 48.74 2 +GCF 50.25 0 +GCF 52.01 1 +GCF 54.77 0 +GCF 57.54 1 +# GC Content of last fragments. Use `grep ^GCL | cut -f 2-` to extract this part. +GCL 15.08 0 +GCL 30.65 1 +GCL 31.66 0 +GCL 32.41 2 +GCL 32.91 1 +GCL 33.42 3 +GCL 33.92 4 +GCL 34.42 3 +GCL 34.92 4 +GCL 35.68 5 +GCL 36.43 10 +GCL 36.93 8 +GCL 37.44 7 +GCL 37.94 9 +GCL 38.44 10 +GCL 38.94 13 +GCL 39.45 8 +GCL 39.95 7 +GCL 40.45 2 +GCL 40.95 4 +GCL 41.46 3 +GCL 41.96 1 +GCL 42.46 4 +GCL 42.96 6 +GCL 43.47 4 +GCL 44.22 2 +GCL 44.97 4 +GCL 45.48 7 +GCL 45.98 3 +GCL 46.48 2 +GCL 46.98 3 +GCL 47.49 1 +GCL 48.49 0 +GCL 49.75 2 +# ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +GCC 1 19.50 26.50 31.50 22.50 0.00 0.00 +GCC 2 30.50 20.50 17.00 32.00 0.00 0.00 +GCC 3 32.00 15.00 16.50 36.50 0.00 0.00 +GCC 4 30.50 21.00 17.50 31.00 0.00 0.00 +GCC 5 39.50 9.50 12.50 38.50 0.00 0.00 +GCC 6 28.00 17.50 18.50 36.00 0.00 0.00 +GCC 7 29.50 19.50 21.00 30.00 0.00 0.00 +GCC 8 29.50 21.00 23.00 26.50 0.00 0.00 +GCC 9 22.00 32.50 27.00 18.50 0.00 0.00 +GCC 10 36.00 12.00 16.00 36.00 0.00 0.00 +GCC 11 28.00 18.50 20.50 33.00 0.00 0.00 +GCC 12 33.50 21.00 16.00 29.50 0.00 0.00 +GCC 13 28.00 19.00 27.50 25.50 0.00 0.00 +GCC 14 24.50 21.50 19.00 35.00 0.00 0.00 +GCC 15 29.50 16.50 20.00 34.00 0.00 0.00 +GCC 16 31.00 20.00 21.50 27.50 0.00 0.00 +GCC 17 27.50 16.50 19.50 36.50 0.00 0.00 +GCC 18 30.50 24.00 19.50 26.00 0.00 0.00 +GCC 19 23.50 21.50 17.50 37.50 0.00 0.00 +GCC 20 31.50 17.00 21.50 30.00 0.00 0.00 +GCC 21 26.00 22.00 17.50 34.50 0.00 0.00 +GCC 22 30.50 19.00 23.00 27.50 0.00 0.00 +GCC 23 31.50 15.50 22.50 30.50 0.00 0.00 +GCC 24 32.00 18.00 21.00 29.00 0.00 0.00 +GCC 25 27.50 16.50 22.00 34.00 0.00 0.00 +GCC 26 27.50 18.50 23.50 30.50 0.00 0.00 +GCC 27 28.50 19.00 19.50 33.00 0.00 0.00 +GCC 28 22.50 21.00 22.50 34.00 0.00 0.00 +GCC 29 27.00 18.50 22.00 32.50 0.00 0.00 +GCC 30 30.50 20.00 21.50 28.00 0.00 0.00 +GCC 31 24.50 21.00 24.00 30.50 0.00 0.00 +GCC 32 32.50 17.50 16.50 33.50 0.00 0.00 +GCC 33 28.50 16.00 25.00 30.50 0.00 0.00 +GCC 34 29.00 21.00 23.50 26.50 0.00 0.00 +GCC 35 32.50 18.50 21.00 28.00 0.00 0.00 +GCC 36 35.00 12.50 20.00 32.50 0.00 0.00 +GCC 37 26.50 20.00 18.50 35.00 0.00 0.00 +GCC 38 27.00 21.00 19.50 32.50 0.00 0.00 +GCC 39 31.00 20.00 19.00 30.00 0.00 0.00 +GCC 40 27.50 20.00 21.50 31.00 0.00 0.00 +GCC 41 37.00 16.50 19.00 27.50 0.00 0.00 +GCC 42 26.50 19.50 18.50 35.50 0.00 0.00 +GCC 43 33.50 20.00 17.50 29.00 0.00 0.00 +GCC 44 31.50 16.00 21.00 31.50 0.00 0.00 +GCC 45 28.50 19.00 20.00 32.50 0.00 0.00 +GCC 46 24.50 23.50 17.50 34.50 0.00 0.00 +GCC 47 22.50 24.50 19.50 33.50 0.00 0.00 +GCC 48 27.50 17.50 22.50 32.50 0.00 0.00 +GCC 49 28.50 17.00 20.00 34.50 0.00 0.00 +GCC 50 32.00 16.50 20.00 31.50 0.00 0.00 +GCC 51 27.50 20.50 21.00 31.00 0.00 0.00 +GCC 52 27.50 21.50 19.50 31.50 0.00 0.00 +GCC 53 26.00 19.00 25.50 29.50 0.00 0.00 +GCC 54 30.65 23.62 16.58 29.15 0.00 0.00 +GCC 55 29.65 21.61 20.10 28.64 0.00 0.00 +GCC 56 32.16 16.58 22.11 29.15 0.00 0.00 +GCC 57 28.64 20.60 21.11 29.65 0.00 0.00 +GCC 58 29.65 14.57 24.62 31.16 0.00 0.00 +GCC 59 31.16 21.61 17.59 29.65 0.00 0.00 +GCC 60 28.64 17.59 22.11 31.66 0.00 0.00 +GCC 61 25.13 21.61 22.61 30.65 0.00 0.00 +GCC 62 27.14 26.13 21.61 25.13 0.00 0.00 +GCC 63 29.15 14.57 18.59 37.69 0.00 0.00 +GCC 64 29.15 15.08 21.61 34.17 0.00 0.00 +GCC 65 28.64 20.10 19.10 32.16 0.00 0.00 +GCC 66 31.66 19.10 16.08 33.17 0.00 0.00 +GCC 67 24.75 20.20 24.24 30.81 0.00 0.00 +GCC 68 26.77 19.70 23.23 30.30 0.00 0.00 +GCC 69 30.96 17.26 22.84 28.93 0.00 0.00 +GCC 70 33.67 16.84 21.94 27.55 0.00 0.00 +GCC 71 35.20 20.41 18.88 25.51 0.00 0.00 +GCC 72 33.67 15.82 18.88 31.63 0.00 0.00 +GCC 73 32.31 18.46 18.46 30.77 0.00 0.00 +GCC 74 27.69 18.46 24.10 29.74 0.00 0.00 +GCC 75 32.31 14.87 21.54 31.28 0.00 0.00 +GCC 76 24.62 20.00 21.03 34.36 0.00 0.00 +GCC 77 29.74 17.44 17.95 34.87 0.00 0.00 +GCC 78 24.48 20.83 17.19 37.50 0.00 0.00 +GCC 79 33.33 20.83 19.79 26.04 0.00 0.00 +GCC 80 31.05 16.32 22.11 30.53 0.00 0.00 +GCC 81 33.33 15.87 15.34 35.45 0.00 0.00 +GCC 82 31.75 19.58 19.58 29.10 0.00 0.00 +GCC 83 30.32 21.81 18.62 29.26 0.00 0.00 +GCC 84 27.66 21.81 15.96 34.57 0.00 0.00 +GCC 85 26.06 15.43 22.34 36.17 0.00 0.00 +GCC 86 25.00 18.09 21.81 35.11 0.00 0.00 +GCC 87 30.85 18.09 15.43 35.64 0.00 0.00 +GCC 88 32.45 25.00 18.09 24.47 0.00 0.00 +GCC 89 24.47 15.43 19.68 40.43 0.00 0.00 +GCC 90 27.27 21.93 20.86 29.95 0.00 0.00 +GCC 91 28.34 14.97 20.86 35.83 0.00 0.00 +GCC 92 28.34 18.18 20.32 33.16 0.00 0.00 +GCC 93 28.65 18.38 18.38 34.59 0.00 0.00 +GCC 94 29.19 17.84 20.54 32.43 0.00 0.00 +GCC 95 27.72 23.91 21.20 27.17 0.00 0.00 +GCC 96 31.32 18.68 16.48 33.52 0.00 0.00 +GCC 97 21.98 17.58 21.43 39.01 0.00 0.00 +GCC 98 27.47 15.93 18.68 37.91 0.00 0.00 +GCC 99 27.53 20.22 17.98 34.27 0.00 0.00 +GCC 100 34.83 15.17 19.66 30.34 0.00 0.00 +GCC 101 36.52 16.85 20.22 26.40 0.00 0.00 +GCC 102 29.55 22.16 23.30 25.00 0.00 0.00 +GCC 103 27.84 18.75 19.32 34.09 0.00 0.00 +GCC 104 26.14 14.77 22.16 36.93 0.00 0.00 +GCC 105 33.52 11.36 19.89 35.23 0.00 0.00 +GCC 106 28.00 20.00 19.43 32.57 0.00 0.00 +GCC 107 25.88 16.47 24.12 33.53 0.00 0.00 +GCC 108 30.77 20.71 15.98 32.54 0.00 0.00 +GCC 109 26.63 30.18 16.57 26.63 0.00 0.00 +GCC 110 27.81 9.47 23.67 39.05 0.00 0.00 +GCC 111 30.18 16.57 23.67 29.59 0.00 0.00 +GCC 112 28.40 21.30 24.85 25.44 0.00 0.00 +GCC 113 28.57 19.64 22.02 29.76 0.00 0.00 +GCC 114 31.55 23.21 17.86 27.38 0.00 0.00 +GCC 115 35.12 19.64 15.48 29.76 0.00 0.00 +GCC 116 26.79 17.86 22.62 32.74 0.00 0.00 +GCC 117 34.73 22.75 14.37 28.14 0.00 0.00 +GCC 118 27.11 23.49 15.06 34.34 0.00 0.00 +GCC 119 31.93 19.28 20.48 28.31 0.00 0.00 +GCC 120 35.15 16.97 18.18 29.70 0.00 0.00 +GCC 121 26.67 24.85 18.18 30.30 0.00 0.00 +GCC 122 33.94 17.58 19.39 29.09 0.00 0.00 +GCC 123 29.45 19.63 18.40 32.52 0.00 0.00 +GCC 124 24.54 22.09 23.31 30.06 0.00 0.00 +GCC 125 28.22 17.18 20.86 33.74 0.00 0.00 +GCC 126 40.99 17.39 16.15 25.47 0.00 0.00 +GCC 127 28.75 18.12 19.38 33.75 0.00 0.00 +GCC 128 25.16 22.01 20.13 32.70 0.00 0.00 +GCC 129 23.27 16.98 23.27 36.48 0.00 0.00 +GCC 130 33.12 12.74 24.20 29.94 0.00 0.00 +GCC 131 25.48 16.56 21.66 36.31 0.00 0.00 +GCC 132 31.21 19.11 22.29 27.39 0.00 0.00 +GCC 133 30.97 19.35 19.35 30.32 0.00 0.00 +GCC 134 32.90 14.84 23.23 29.03 0.00 0.00 +GCC 135 32.26 18.71 18.06 30.97 0.00 0.00 +GCC 136 34.19 19.35 22.58 23.87 0.00 0.00 +GCC 137 27.27 18.18 20.13 34.42 0.00 0.00 +GCC 138 30.52 18.18 17.53 33.77 0.00 0.00 +GCC 139 26.62 22.08 19.48 31.82 0.00 0.00 +GCC 140 27.81 24.50 19.87 27.81 0.00 0.00 +GCC 141 28.00 23.33 21.33 27.33 0.00 0.00 +GCC 142 29.53 15.44 28.19 26.85 0.00 0.00 +GCC 143 24.66 15.07 23.97 36.30 0.00 0.00 +GCC 144 27.40 16.44 19.86 36.30 0.00 0.00 +GCC 145 29.45 13.70 19.86 36.99 0.00 0.00 +GCC 146 35.86 12.41 18.62 33.10 0.00 0.00 +GCC 147 32.87 20.98 16.08 30.07 0.00 0.00 +GCC 148 31.11 20.74 23.70 24.44 0.00 0.00 +GCC 149 33.07 14.96 19.69 32.28 0.00 0.00 +GCC 150 36.94 14.41 14.41 34.23 0.00 0.00 +GCC 151 40.82 18.37 14.29 26.53 0.00 0.00 +# ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%] +GCT 1 22.50 26.00 32.00 19.50 +GCT 2 20.00 21.50 16.00 42.50 +GCT 3 30.00 16.50 15.00 38.50 +GCT 4 21.50 26.50 12.00 40.00 +GCT 5 44.50 10.00 12.00 33.50 +GCT 6 42.50 13.50 22.50 21.50 +GCT 7 34.50 17.00 23.50 25.00 +GCT 8 37.50 22.50 21.50 18.50 +GCT 9 17.00 39.00 20.50 23.50 +GCT 10 33.00 14.50 13.50 39.00 +GCT 11 34.50 12.50 26.50 26.50 +GCT 12 27.50 14.50 22.50 35.50 +GCT 13 21.50 22.00 24.50 32.00 +GCT 14 28.00 27.50 13.00 31.50 +GCT 15 35.00 15.50 21.00 28.50 +GCT 16 36.50 24.00 17.50 22.00 +GCT 17 36.50 18.00 18.00 27.50 +GCT 18 29.50 23.50 20.00 27.00 +GCT 19 30.00 17.50 21.50 31.00 +GCT 20 30.00 19.00 19.50 31.50 +GCT 21 25.50 20.00 19.50 35.00 +GCT 22 29.00 23.00 19.00 29.00 +GCT 23 30.50 21.00 17.00 31.50 +GCT 24 30.50 22.00 17.00 30.50 +GCT 25 28.50 19.00 19.50 33.00 +GCT 26 27.50 19.00 23.00 30.50 +GCT 27 33.50 21.50 17.00 28.00 +GCT 28 28.50 23.50 20.00 28.00 +GCT 29 32.00 21.00 19.50 27.50 +GCT 30 30.50 20.50 21.00 28.00 +GCT 31 25.00 24.00 21.00 30.00 +GCT 32 37.00 17.50 16.50 29.00 +GCT 33 27.00 19.00 22.00 32.00 +GCT 34 29.50 22.00 22.50 26.00 +GCT 35 29.00 19.50 20.00 31.50 +GCT 36 37.50 17.50 15.00 30.00 +GCT 37 32.50 21.50 17.00 29.00 +GCT 38 30.00 20.50 20.00 29.50 +GCT 39 34.00 20.50 18.50 27.00 +GCT 40 27.00 22.00 19.50 31.50 +GCT 41 32.00 20.00 15.50 32.50 +GCT 42 37.50 17.00 21.00 24.50 +GCT 43 25.50 19.50 18.00 37.00 +GCT 44 31.50 18.50 18.50 31.50 +GCT 45 27.00 20.00 19.00 34.00 +GCT 46 29.00 20.50 20.50 30.00 +GCT 47 29.00 20.50 23.50 27.00 +GCT 48 27.00 21.50 18.50 33.00 +GCT 49 27.00 17.00 20.00 36.00 +GCT 50 29.00 21.00 15.50 34.50 +GCT 51 33.00 21.50 20.00 25.50 +GCT 52 30.50 21.00 20.00 28.50 +GCT 53 24.50 23.00 21.50 31.00 +GCT 54 30.15 20.60 19.60 29.65 +GCT 55 25.13 20.60 21.11 33.17 +GCT 56 26.13 21.11 17.59 35.18 +GCT 57 27.14 20.60 21.11 31.16 +GCT 58 30.15 17.59 21.61 30.65 +GCT 59 32.66 20.60 18.59 28.14 +GCT 60 31.66 18.09 21.61 28.64 +GCT 61 25.13 23.12 21.11 30.65 +GCT 62 24.62 23.12 24.62 27.64 +GCT 63 36.68 17.59 15.58 30.15 +GCT 64 35.18 16.58 20.10 28.14 +GCT 65 30.65 18.59 20.60 30.15 +GCT 66 34.67 15.58 19.60 30.15 +GCT 67 29.29 24.75 19.70 26.26 +GCT 68 28.28 21.21 21.72 28.79 +GCT 69 29.44 22.84 17.26 30.46 +GCT 70 36.22 19.90 18.88 25.00 +GCT 71 34.18 20.92 18.37 26.53 +GCT 72 32.14 17.86 16.84 33.16 +GCT 73 32.82 14.36 22.56 30.26 +GCT 74 30.26 21.54 21.03 27.18 +GCT 75 33.33 18.46 17.95 30.26 +GCT 76 29.23 23.08 17.95 29.74 +GCT 77 29.74 17.95 17.44 34.87 +GCT 78 31.25 20.83 17.19 30.73 +GCT 79 29.17 23.44 17.19 30.21 +GCT 80 35.79 21.05 17.37 25.79 +GCT 81 39.68 20.11 11.11 29.10 +GCT 82 28.04 16.93 22.22 32.80 +GCT 83 29.26 20.21 20.21 30.32 +GCT 84 35.11 18.09 19.68 27.13 +GCT 85 28.72 20.74 17.02 33.51 +GCT 86 29.79 21.28 18.62 30.32 +GCT 87 31.38 18.09 15.43 35.11 +GCT 88 28.72 21.81 21.28 28.19 +GCT 89 30.32 18.62 16.49 34.57 +GCT 90 29.95 13.90 28.88 27.27 +GCT 91 32.09 15.51 20.32 32.09 +GCT 92 26.20 18.18 20.32 35.29 +GCT 93 31.35 18.38 18.38 31.89 +GCT 94 29.73 15.68 22.70 31.89 +GCT 95 28.80 19.57 25.54 26.09 +GCT 96 32.42 20.33 14.84 32.42 +GCT 97 31.87 21.43 17.58 29.12 +GCT 98 30.77 14.29 20.33 34.62 +GCT 99 28.65 17.42 20.79 33.15 +GCT 100 28.65 14.04 20.79 36.52 +GCT 101 27.53 23.03 14.04 35.39 +GCT 102 26.70 17.05 28.41 27.84 +GCT 103 29.55 20.45 17.61 32.39 +GCT 104 34.66 22.16 14.77 28.41 +GCT 105 40.91 13.07 18.18 27.84 +GCT 106 24.57 20.57 18.86 36.00 +GCT 107 26.47 18.24 22.35 32.94 +GCT 108 31.95 17.16 19.53 31.36 +GCT 109 26.04 24.85 21.89 27.22 +GCT 110 32.54 17.75 15.38 34.32 +GCT 111 26.63 17.75 22.49 33.14 +GCT 112 27.81 23.08 23.08 26.04 +GCT 113 35.12 16.67 25.00 23.21 +GCT 114 30.95 21.43 19.64 27.98 +GCT 115 29.17 18.45 16.67 35.71 +GCT 116 30.36 17.86 22.62 29.17 +GCT 117 27.54 21.56 15.57 35.33 +GCT 118 33.13 22.89 15.66 28.31 +GCT 119 33.73 16.87 22.89 26.51 +GCT 120 26.67 13.94 21.21 38.18 +GCT 121 29.09 18.18 24.85 27.88 +GCT 122 27.27 21.21 15.76 35.76 +GCT 123 30.06 17.79 20.25 31.90 +GCT 124 28.22 22.09 23.31 26.38 +GCT 125 27.61 20.25 17.79 34.36 +GCT 126 31.06 16.77 16.77 35.40 +GCT 127 32.50 15.00 22.50 30.00 +GCT 128 25.79 18.87 23.27 32.08 +GCT 129 28.30 20.75 19.50 31.45 +GCT 130 33.12 18.47 18.47 29.94 +GCT 131 31.85 19.75 18.47 29.94 +GCT 132 30.57 22.93 18.47 28.03 +GCT 133 29.68 18.06 20.65 31.61 +GCT 134 30.97 23.23 14.84 30.97 +GCT 135 32.90 16.77 20.00 30.32 +GCT 136 29.03 19.35 22.58 29.03 +GCT 137 27.92 24.68 13.64 33.77 +GCT 138 35.06 16.88 18.83 29.22 +GCT 139 33.12 22.73 18.83 25.32 +GCT 140 34.44 22.52 21.85 21.19 +GCT 141 25.33 22.67 22.00 30.00 +GCT 142 31.54 21.48 22.15 24.83 +GCT 143 35.62 20.55 18.49 25.34 +GCT 144 25.34 14.38 21.92 38.36 +GCT 145 35.62 15.75 17.81 30.82 +GCT 146 33.79 14.48 16.55 35.17 +GCT 147 32.17 20.98 16.08 30.77 +GCT 148 26.67 23.70 20.74 28.89 +GCT 149 40.16 16.54 18.11 25.20 +GCT 150 33.33 9.91 18.92 37.84 +GCT 151 24.49 0.00 32.65 42.86 +# ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +FBC 1 20.00 26.00 32.00 22.00 0.00 0.00 +FBC 2 34.00 16.00 18.00 32.00 0.00 0.00 +FBC 3 35.00 17.00 16.00 32.00 0.00 0.00 +FBC 4 27.00 22.00 22.00 29.00 0.00 0.00 +FBC 5 33.00 10.00 14.00 43.00 0.00 0.00 +FBC 6 30.00 18.00 13.00 39.00 0.00 0.00 +FBC 7 27.00 22.00 21.00 30.00 0.00 0.00 +FBC 8 35.00 20.00 20.00 25.00 0.00 0.00 +FBC 9 23.00 34.00 23.00 20.00 0.00 0.00 +FBC 10 33.00 13.00 14.00 40.00 0.00 0.00 +FBC 11 33.00 17.00 21.00 29.00 0.00 0.00 +FBC 12 35.00 21.00 11.00 33.00 0.00 0.00 +FBC 13 31.00 20.00 21.00 28.00 0.00 0.00 +FBC 14 26.00 23.00 21.00 30.00 0.00 0.00 +FBC 15 25.00 24.00 18.00 33.00 0.00 0.00 +FBC 16 32.00 24.00 23.00 21.00 0.00 0.00 +FBC 17 27.00 13.00 21.00 39.00 0.00 0.00 +FBC 18 26.00 28.00 15.00 31.00 0.00 0.00 +FBC 19 24.00 18.00 19.00 39.00 0.00 0.00 +FBC 20 29.00 16.00 22.00 33.00 0.00 0.00 +FBC 21 21.00 20.00 13.00 46.00 0.00 0.00 +FBC 22 32.00 17.00 21.00 30.00 0.00 0.00 +FBC 23 33.00 13.00 24.00 30.00 0.00 0.00 +FBC 24 34.00 16.00 17.00 33.00 0.00 0.00 +FBC 25 27.00 18.00 22.00 33.00 0.00 0.00 +FBC 26 31.00 15.00 23.00 31.00 0.00 0.00 +FBC 27 29.00 18.00 20.00 33.00 0.00 0.00 +FBC 28 23.00 21.00 20.00 36.00 0.00 0.00 +FBC 29 26.00 14.00 24.00 36.00 0.00 0.00 +FBC 30 26.00 21.00 23.00 30.00 0.00 0.00 +FBC 31 25.00 19.00 22.00 34.00 0.00 0.00 +FBC 32 30.00 21.00 15.00 34.00 0.00 0.00 +FBC 33 31.00 16.00 22.00 31.00 0.00 0.00 +FBC 34 29.00 19.00 22.00 30.00 0.00 0.00 +FBC 35 38.00 13.00 27.00 22.00 0.00 0.00 +FBC 36 33.00 13.00 20.00 34.00 0.00 0.00 +FBC 37 32.00 14.00 18.00 36.00 0.00 0.00 +FBC 38 31.00 22.00 17.00 30.00 0.00 0.00 +FBC 39 32.00 18.00 16.00 34.00 0.00 0.00 +FBC 40 28.00 23.00 20.00 29.00 0.00 0.00 +FBC 41 41.00 14.00 16.00 29.00 0.00 0.00 +FBC 42 27.00 20.00 21.00 32.00 0.00 0.00 +FBC 43 35.00 23.00 14.00 28.00 0.00 0.00 +FBC 44 33.00 14.00 18.00 35.00 0.00 0.00 +FBC 45 30.00 18.00 19.00 33.00 0.00 0.00 +FBC 46 26.00 22.00 24.00 28.00 0.00 0.00 +FBC 47 25.00 26.00 22.00 27.00 0.00 0.00 +FBC 48 27.00 15.00 24.00 34.00 0.00 0.00 +FBC 49 23.00 20.00 21.00 36.00 0.00 0.00 +FBC 50 30.00 14.00 26.00 30.00 0.00 0.00 +FBC 51 32.00 15.00 15.00 38.00 0.00 0.00 +FBC 52 31.00 20.00 19.00 30.00 0.00 0.00 +FBC 53 28.00 17.00 28.00 27.00 0.00 0.00 +FBC 54 28.00 24.00 21.00 27.00 0.00 0.00 +FBC 55 23.00 25.00 20.00 32.00 0.00 0.00 +FBC 56 31.00 19.00 22.00 28.00 0.00 0.00 +FBC 57 33.00 19.00 18.00 30.00 0.00 0.00 +FBC 58 34.00 16.00 25.00 25.00 0.00 0.00 +FBC 59 35.00 22.00 17.00 26.00 0.00 0.00 +FBC 60 24.00 22.00 24.00 30.00 0.00 0.00 +FBC 61 22.00 25.00 27.00 26.00 0.00 0.00 +FBC 62 23.00 30.00 20.00 27.00 0.00 0.00 +FBC 63 30.00 10.00 22.00 38.00 0.00 0.00 +FBC 64 25.00 17.00 20.00 38.00 0.00 0.00 +FBC 65 25.00 24.00 21.00 30.00 0.00 0.00 +FBC 66 33.00 12.00 19.00 36.00 0.00 0.00 +FBC 67 23.00 22.00 19.00 36.00 0.00 0.00 +FBC 68 23.00 21.00 25.00 31.00 0.00 0.00 +FBC 69 31.00 17.00 24.00 28.00 0.00 0.00 +FBC 70 31.00 18.00 27.00 24.00 0.00 0.00 +FBC 71 42.00 17.00 15.00 26.00 0.00 0.00 +FBC 72 34.00 15.00 23.00 28.00 0.00 0.00 +FBC 73 31.31 23.23 19.19 26.26 0.00 0.00 +FBC 74 21.21 22.22 26.26 30.30 0.00 0.00 +FBC 75 32.32 15.15 20.20 32.32 0.00 0.00 +FBC 76 29.29 13.13 17.17 40.40 0.00 0.00 +FBC 77 26.26 18.18 21.21 34.34 0.00 0.00 +FBC 78 28.87 17.53 22.68 30.93 0.00 0.00 +FBC 79 32.99 20.62 20.62 25.77 0.00 0.00 +FBC 80 29.47 16.84 26.32 27.37 0.00 0.00 +FBC 81 32.98 12.77 12.77 41.49 0.00 0.00 +FBC 82 37.23 20.21 21.28 21.28 0.00 0.00 +FBC 83 31.91 23.40 18.09 26.60 0.00 0.00 +FBC 84 24.47 23.40 14.89 37.23 0.00 0.00 +FBC 85 36.17 18.09 20.21 25.53 0.00 0.00 +FBC 86 25.53 19.15 20.21 35.11 0.00 0.00 +FBC 87 29.79 18.09 13.83 38.30 0.00 0.00 +FBC 88 32.98 28.72 15.96 22.34 0.00 0.00 +FBC 89 24.47 20.21 15.96 39.36 0.00 0.00 +FBC 90 31.18 19.35 13.98 35.48 0.00 0.00 +FBC 91 25.81 19.35 18.28 36.56 0.00 0.00 +FBC 92 30.11 18.28 18.28 33.33 0.00 0.00 +FBC 93 28.26 13.04 20.65 38.04 0.00 0.00 +FBC 94 31.52 18.48 20.65 29.35 0.00 0.00 +FBC 95 26.37 21.98 21.98 29.67 0.00 0.00 +FBC 96 24.44 17.78 23.33 34.44 0.00 0.00 +FBC 97 17.78 17.78 21.11 43.33 0.00 0.00 +FBC 98 26.67 13.33 14.44 45.56 0.00 0.00 +FBC 99 27.27 20.45 19.32 32.95 0.00 0.00 +FBC 100 36.36 13.64 22.73 27.27 0.00 0.00 +FBC 101 40.91 15.91 17.05 26.14 0.00 0.00 +FBC 102 28.41 23.86 22.73 25.00 0.00 0.00 +FBC 103 30.68 19.32 18.18 31.82 0.00 0.00 +FBC 104 18.18 18.18 25.00 38.64 0.00 0.00 +FBC 105 30.68 10.23 19.32 39.77 0.00 0.00 +FBC 106 36.36 15.91 21.59 26.14 0.00 0.00 +FBC 107 25.58 15.12 19.77 39.53 0.00 0.00 +FBC 108 32.94 18.82 12.94 35.29 0.00 0.00 +FBC 109 28.24 29.41 17.65 24.71 0.00 0.00 +FBC 110 28.24 10.59 24.71 36.47 0.00 0.00 +FBC 111 34.12 14.12 25.88 25.88 0.00 0.00 +FBC 112 23.53 21.18 28.24 27.06 0.00 0.00 +FBC 113 21.18 21.18 23.53 34.12 0.00 0.00 +FBC 114 23.53 23.53 16.47 36.47 0.00 0.00 +FBC 115 30.59 27.06 12.94 29.41 0.00 0.00 +FBC 116 24.71 15.29 29.41 30.59 0.00 0.00 +FBC 117 29.41 27.06 12.94 30.59 0.00 0.00 +FBC 118 24.71 27.06 15.29 32.94 0.00 0.00 +FBC 119 27.06 22.35 22.35 28.24 0.00 0.00 +FBC 120 36.90 20.24 14.29 28.57 0.00 0.00 +FBC 121 33.33 20.24 15.48 30.95 0.00 0.00 +FBC 122 35.71 20.24 14.29 29.76 0.00 0.00 +FBC 123 24.10 25.30 16.87 33.73 0.00 0.00 +FBC 124 27.71 24.10 19.28 28.92 0.00 0.00 +FBC 125 26.51 16.87 19.28 37.35 0.00 0.00 +FBC 126 41.46 15.85 13.41 29.27 0.00 0.00 +FBC 127 28.05 18.29 24.39 29.27 0.00 0.00 +FBC 128 20.99 20.99 22.22 35.80 0.00 0.00 +FBC 129 22.22 13.58 22.22 41.98 0.00 0.00 +FBC 130 32.50 10.00 26.25 31.25 0.00 0.00 +FBC 131 26.25 15.00 26.25 32.50 0.00 0.00 +FBC 132 30.00 18.75 21.25 30.00 0.00 0.00 +FBC 133 32.91 20.25 17.72 29.11 0.00 0.00 +FBC 134 29.11 15.19 25.32 30.38 0.00 0.00 +FBC 135 31.65 18.99 18.99 30.38 0.00 0.00 +FBC 136 34.18 18.99 25.32 21.52 0.00 0.00 +FBC 137 29.11 10.13 25.32 35.44 0.00 0.00 +FBC 138 25.32 24.05 17.72 32.91 0.00 0.00 +FBC 139 25.32 25.32 18.99 30.38 0.00 0.00 +FBC 140 29.87 24.68 19.48 25.97 0.00 0.00 +FBC 141 29.87 22.08 18.18 29.87 0.00 0.00 +FBC 142 27.63 15.79 30.26 26.32 0.00 0.00 +FBC 143 27.03 18.92 24.32 29.73 0.00 0.00 +FBC 144 28.38 18.92 18.92 33.78 0.00 0.00 +FBC 145 32.43 16.22 14.86 36.49 0.00 0.00 +FBC 146 36.49 13.51 16.22 33.78 0.00 0.00 +FBC 147 34.72 22.22 13.89 29.17 0.00 0.00 +FBC 148 26.87 20.90 26.87 25.37 0.00 0.00 +FBC 149 31.25 12.50 25.00 31.25 0.00 0.00 +FBC 150 32.73 16.36 10.91 40.00 0.00 0.00 +FBC 151 48.28 17.24 13.79 20.69 0.00 0.00 +# ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +FTC 4077 2634 2796 4390 0 +# ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The columns are: cycle; A,C,G,T base counts as a percentage of all A/C/G/T bases [%]; and N and O counts as a percentage of all A/C/G/T bases [%] +LBC 1 19.00 27.00 31.00 23.00 0.00 0.00 +LBC 2 27.00 25.00 16.00 32.00 0.00 0.00 +LBC 3 29.00 13.00 17.00 41.00 0.00 0.00 +LBC 4 34.00 20.00 13.00 33.00 0.00 0.00 +LBC 5 46.00 9.00 11.00 34.00 0.00 0.00 +LBC 6 26.00 17.00 24.00 33.00 0.00 0.00 +LBC 7 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 8 24.00 22.00 26.00 28.00 0.00 0.00 +LBC 9 21.00 31.00 31.00 17.00 0.00 0.00 +LBC 10 39.00 11.00 18.00 32.00 0.00 0.00 +LBC 11 23.00 20.00 20.00 37.00 0.00 0.00 +LBC 12 32.00 21.00 21.00 26.00 0.00 0.00 +LBC 13 25.00 18.00 34.00 23.00 0.00 0.00 +LBC 14 23.00 20.00 17.00 40.00 0.00 0.00 +LBC 15 34.00 9.00 22.00 35.00 0.00 0.00 +LBC 16 30.00 16.00 20.00 34.00 0.00 0.00 +LBC 17 28.00 20.00 18.00 34.00 0.00 0.00 +LBC 18 35.00 20.00 24.00 21.00 0.00 0.00 +LBC 19 23.00 25.00 16.00 36.00 0.00 0.00 +LBC 20 34.00 18.00 21.00 27.00 0.00 0.00 +LBC 21 31.00 24.00 22.00 23.00 0.00 0.00 +LBC 22 29.00 21.00 25.00 25.00 0.00 0.00 +LBC 23 30.00 18.00 21.00 31.00 0.00 0.00 +LBC 24 30.00 20.00 25.00 25.00 0.00 0.00 +LBC 25 28.00 15.00 22.00 35.00 0.00 0.00 +LBC 26 24.00 22.00 24.00 30.00 0.00 0.00 +LBC 27 28.00 20.00 19.00 33.00 0.00 0.00 +LBC 28 22.00 21.00 25.00 32.00 0.00 0.00 +LBC 29 28.00 23.00 20.00 29.00 0.00 0.00 +LBC 30 35.00 19.00 20.00 26.00 0.00 0.00 +LBC 31 24.00 23.00 26.00 27.00 0.00 0.00 +LBC 32 35.00 14.00 18.00 33.00 0.00 0.00 +LBC 33 26.00 16.00 28.00 30.00 0.00 0.00 +LBC 34 29.00 23.00 25.00 23.00 0.00 0.00 +LBC 35 27.00 24.00 15.00 34.00 0.00 0.00 +LBC 36 37.00 12.00 20.00 31.00 0.00 0.00 +LBC 37 21.00 26.00 19.00 34.00 0.00 0.00 +LBC 38 23.00 20.00 22.00 35.00 0.00 0.00 +LBC 39 30.00 22.00 22.00 26.00 0.00 0.00 +LBC 40 27.00 17.00 23.00 33.00 0.00 0.00 +LBC 41 33.00 19.00 22.00 26.00 0.00 0.00 +LBC 42 26.00 19.00 16.00 39.00 0.00 0.00 +LBC 43 32.00 17.00 21.00 30.00 0.00 0.00 +LBC 44 30.00 18.00 24.00 28.00 0.00 0.00 +LBC 45 27.00 20.00 21.00 32.00 0.00 0.00 +LBC 46 23.00 25.00 11.00 41.00 0.00 0.00 +LBC 47 20.00 23.00 17.00 40.00 0.00 0.00 +LBC 48 28.00 20.00 21.00 31.00 0.00 0.00 +LBC 49 34.00 14.00 19.00 33.00 0.00 0.00 +LBC 50 34.00 19.00 14.00 33.00 0.00 0.00 +LBC 51 23.00 26.00 27.00 24.00 0.00 0.00 +LBC 52 24.00 23.00 20.00 33.00 0.00 0.00 +LBC 53 24.00 21.00 23.00 32.00 0.00 0.00 +LBC 54 33.33 23.23 12.12 31.31 0.00 0.00 +LBC 55 36.36 18.18 20.20 25.25 0.00 0.00 +LBC 56 33.33 14.14 22.22 30.30 0.00 0.00 +LBC 57 24.24 22.22 24.24 29.29 0.00 0.00 +LBC 58 25.25 13.13 24.24 37.37 0.00 0.00 +LBC 59 27.27 21.21 18.18 33.33 0.00 0.00 +LBC 60 33.33 13.13 20.20 33.33 0.00 0.00 +LBC 61 28.28 18.18 18.18 35.35 0.00 0.00 +LBC 62 31.31 22.22 23.23 23.23 0.00 0.00 +LBC 63 28.28 19.19 15.15 37.37 0.00 0.00 +LBC 64 33.33 13.13 23.23 30.30 0.00 0.00 +LBC 65 32.32 16.16 17.17 34.34 0.00 0.00 +LBC 66 30.30 26.26 13.13 30.30 0.00 0.00 +LBC 67 26.53 18.37 29.59 25.51 0.00 0.00 +LBC 68 30.61 18.37 21.43 29.59 0.00 0.00 +LBC 69 30.93 17.53 21.65 29.90 0.00 0.00 +LBC 70 36.46 15.62 16.67 31.25 0.00 0.00 +LBC 71 28.12 23.96 22.92 25.00 0.00 0.00 +LBC 72 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 73 33.33 13.54 17.71 35.42 0.00 0.00 +LBC 74 34.38 14.58 21.88 29.17 0.00 0.00 +LBC 75 32.29 14.58 22.92 30.21 0.00 0.00 +LBC 76 19.79 27.08 25.00 28.12 0.00 0.00 +LBC 77 33.33 16.67 14.58 35.42 0.00 0.00 +LBC 78 20.00 24.21 11.58 44.21 0.00 0.00 +LBC 79 33.68 21.05 18.95 26.32 0.00 0.00 +LBC 80 32.63 15.79 17.89 33.68 0.00 0.00 +LBC 81 33.68 18.95 17.89 29.47 0.00 0.00 +LBC 82 26.32 18.95 17.89 36.84 0.00 0.00 +LBC 83 28.72 20.21 19.15 31.91 0.00 0.00 +LBC 84 30.85 20.21 17.02 31.91 0.00 0.00 +LBC 85 15.96 12.77 24.47 46.81 0.00 0.00 +LBC 86 24.47 17.02 23.40 35.11 0.00 0.00 +LBC 87 31.91 18.09 17.02 32.98 0.00 0.00 +LBC 88 31.91 21.28 20.21 26.60 0.00 0.00 +LBC 89 24.47 10.64 23.40 41.49 0.00 0.00 +LBC 90 23.40 24.47 27.66 24.47 0.00 0.00 +LBC 91 30.85 10.64 23.40 35.11 0.00 0.00 +LBC 92 26.60 18.09 22.34 32.98 0.00 0.00 +LBC 93 29.03 23.66 16.13 31.18 0.00 0.00 +LBC 94 26.88 17.20 20.43 35.48 0.00 0.00 +LBC 95 29.03 25.81 20.43 24.73 0.00 0.00 +LBC 96 38.04 19.57 9.78 32.61 0.00 0.00 +LBC 97 26.09 17.39 21.74 34.78 0.00 0.00 +LBC 98 28.26 18.48 22.83 30.43 0.00 0.00 +LBC 99 27.78 20.00 16.67 35.56 0.00 0.00 +LBC 100 33.33 16.67 16.67 33.33 0.00 0.00 +LBC 101 32.22 17.78 23.33 26.67 0.00 0.00 +LBC 102 30.68 20.45 23.86 25.00 0.00 0.00 +LBC 103 25.00 18.18 20.45 36.36 0.00 0.00 +LBC 104 34.09 11.36 19.32 35.23 0.00 0.00 +LBC 105 36.36 12.50 20.45 30.68 0.00 0.00 +LBC 106 19.54 24.14 17.24 39.08 0.00 0.00 +LBC 107 26.19 17.86 28.57 27.38 0.00 0.00 +LBC 108 28.57 22.62 19.05 29.76 0.00 0.00 +LBC 109 25.00 30.95 15.48 28.57 0.00 0.00 +LBC 110 27.38 8.33 22.62 41.67 0.00 0.00 +LBC 111 26.19 19.05 21.43 33.33 0.00 0.00 +LBC 112 33.33 21.43 21.43 23.81 0.00 0.00 +LBC 113 36.14 18.07 20.48 25.30 0.00 0.00 +LBC 114 39.76 22.89 19.28 18.07 0.00 0.00 +LBC 115 39.76 12.05 18.07 30.12 0.00 0.00 +LBC 116 28.92 20.48 15.66 34.94 0.00 0.00 +LBC 117 40.24 18.29 15.85 25.61 0.00 0.00 +LBC 118 29.63 19.75 14.81 35.80 0.00 0.00 +LBC 119 37.04 16.05 18.52 28.40 0.00 0.00 +LBC 120 33.33 13.58 22.22 30.86 0.00 0.00 +LBC 121 19.75 29.63 20.99 29.63 0.00 0.00 +LBC 122 32.10 14.81 24.69 28.40 0.00 0.00 +LBC 123 35.00 13.75 20.00 31.25 0.00 0.00 +LBC 124 21.25 20.00 27.50 31.25 0.00 0.00 +LBC 125 30.00 17.50 22.50 30.00 0.00 0.00 +LBC 126 40.51 18.99 18.99 21.52 0.00 0.00 +LBC 127 29.49 17.95 14.10 38.46 0.00 0.00 +LBC 128 29.49 23.08 17.95 29.49 0.00 0.00 +LBC 129 24.36 20.51 24.36 30.77 0.00 0.00 +LBC 130 33.77 15.58 22.08 28.57 0.00 0.00 +LBC 131 24.68 18.18 16.88 40.26 0.00 0.00 +LBC 132 32.47 19.48 23.38 24.68 0.00 0.00 +LBC 133 28.95 18.42 21.05 31.58 0.00 0.00 +LBC 134 36.84 14.47 21.05 27.63 0.00 0.00 +LBC 135 32.89 18.42 17.11 31.58 0.00 0.00 +LBC 136 34.21 19.74 19.74 26.32 0.00 0.00 +LBC 137 25.33 26.67 14.67 33.33 0.00 0.00 +LBC 138 36.00 12.00 17.33 34.67 0.00 0.00 +LBC 139 28.00 18.67 20.00 33.33 0.00 0.00 +LBC 140 25.68 24.32 20.27 29.73 0.00 0.00 +LBC 141 26.03 24.66 24.66 24.66 0.00 0.00 +LBC 142 31.51 15.07 26.03 27.40 0.00 0.00 +LBC 143 22.22 11.11 23.61 43.06 0.00 0.00 +LBC 144 26.39 13.89 20.83 38.89 0.00 0.00 +LBC 145 26.39 11.11 25.00 37.50 0.00 0.00 +LBC 146 35.21 11.27 21.13 32.39 0.00 0.00 +LBC 147 30.99 19.72 18.31 30.99 0.00 0.00 +LBC 148 35.29 20.59 20.59 23.53 0.00 0.00 +LBC 149 34.92 17.46 14.29 33.33 0.00 0.00 +LBC 150 41.07 12.50 17.86 28.57 0.00 0.00 +LBC 151 30.00 20.00 15.00 35.00 0.00 0.00 +# ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The columns are: A,C,G,T,N base counters +LTC 4051 2592 2808 4297 0 +# Insert sizes. Use `grep ^IS | cut -f 2-` to extract this part. The columns are: insert size, pairs total, inward oriented pairs, outward oriented pairs, other pairs +IS 0 0 0 0 0 +IS 1 0 0 0 0 +IS 2 0 0 0 0 +IS 3 0 0 0 0 +IS 4 0 0 0 0 +IS 5 0 0 0 0 +IS 6 0 0 0 0 +IS 7 0 0 0 0 +IS 8 0 0 0 0 +IS 9 0 0 0 0 +IS 10 0 0 0 0 +IS 11 0 0 0 0 +IS 12 0 0 0 0 +IS 13 0 0 0 0 +IS 14 0 0 0 0 +IS 15 0 0 0 0 +IS 16 0 0 0 0 +IS 17 0 0 0 0 +IS 18 0 0 0 0 +IS 19 0 0 0 0 +IS 20 0 0 0 0 +IS 21 0 0 0 0 +IS 22 0 0 0 0 +IS 23 0 0 0 0 +IS 24 0 0 0 0 +IS 25 0 0 0 0 +IS 26 0 0 0 0 +IS 27 0 0 0 0 +IS 28 0 0 0 0 +IS 29 0 0 0 0 +IS 30 0 0 0 0 +IS 31 0 0 0 0 +IS 32 0 0 0 0 +IS 33 0 0 0 0 +IS 34 0 0 0 0 +IS 35 0 0 0 0 +IS 36 0 0 0 0 +IS 37 0 0 0 0 +IS 38 0 0 0 0 +IS 39 0 0 0 0 +IS 40 0 0 0 0 +IS 41 0 0 0 0 +IS 42 0 0 0 0 +IS 43 0 0 0 0 +IS 44 0 0 0 0 +IS 45 0 0 0 0 +IS 46 0 0 0 0 +IS 47 0 0 0 0 +IS 48 0 0 0 0 +IS 49 0 0 0 0 +IS 50 0 0 0 0 +IS 51 0 0 0 0 +IS 52 0 0 0 0 +IS 53 0 0 0 0 +IS 54 0 0 0 0 +IS 55 0 0 0 0 +IS 56 0 0 0 0 +IS 57 0 0 0 0 +IS 58 0 0 0 0 +IS 59 0 0 0 0 +IS 60 0 0 0 0 +IS 61 0 0 0 0 +IS 62 0 0 0 0 +IS 63 0 0 0 0 +IS 64 0 0 0 0 +IS 65 0 0 0 0 +IS 66 0 0 0 0 +IS 67 0 0 0 0 +IS 68 0 0 0 0 +IS 69 0 0 0 0 +IS 70 0 0 0 0 +IS 71 0 0 0 0 +IS 72 0 0 0 0 +IS 73 0 0 0 0 +IS 74 0 0 0 0 +IS 75 0 0 0 0 +IS 76 0 0 0 0 +IS 77 1 0 1 0 +IS 78 0 0 0 0 +IS 79 0 0 0 0 +IS 80 0 0 0 0 +IS 81 0 0 0 0 +IS 82 1 1 0 0 +IS 83 0 0 0 0 +IS 84 0 0 0 0 +IS 85 0 0 0 0 +IS 86 1 1 0 0 +IS 87 0 0 0 0 +IS 88 0 0 0 0 +IS 89 0 0 0 0 +IS 90 0 0 0 0 +IS 91 0 0 0 0 +IS 92 1 1 0 0 +IS 93 0 0 0 0 +IS 94 0 0 0 0 +IS 95 0 0 0 0 +IS 96 0 0 0 0 +IS 97 0 0 0 0 +IS 98 2 1 1 0 +IS 99 0 0 0 0 +IS 100 0 0 0 0 +IS 101 0 0 0 0 +IS 102 0 0 0 0 +IS 103 0 0 0 0 +IS 104 0 0 0 0 +IS 105 0 0 0 0 +IS 106 2 1 1 0 +IS 107 1 1 0 0 +IS 108 0 0 0 0 +IS 109 0 0 0 0 +IS 110 0 0 0 0 +IS 111 0 0 0 0 +IS 112 1 1 0 0 +IS 113 0 0 0 0 +IS 114 0 0 0 0 +IS 115 0 0 0 0 +IS 116 0 0 0 0 +IS 117 0 0 0 0 +IS 118 1 1 0 0 +IS 119 0 0 0 0 +IS 120 0 0 0 0 +IS 121 0 0 0 0 +IS 122 1 0 1 0 +IS 123 0 0 0 0 +IS 124 0 0 0 0 +IS 125 1 0 1 0 +IS 126 0 0 0 0 +IS 127 1 0 1 0 +IS 128 0 0 0 0 +IS 129 1 0 1 0 +IS 130 0 0 0 0 +IS 131 0 0 0 0 +IS 132 1 1 0 0 +IS 133 0 0 0 0 +IS 134 0 0 0 0 +IS 135 0 0 0 0 +IS 136 0 0 0 0 +IS 137 0 0 0 0 +IS 138 0 0 0 0 +IS 139 1 1 0 0 +IS 140 1 1 0 0 +IS 141 0 0 0 0 +IS 142 1 0 1 0 +IS 143 0 0 0 0 +IS 144 0 0 0 0 +IS 145 0 0 0 0 +IS 146 0 0 0 0 +IS 147 1 1 0 0 +IS 148 1 0 1 0 +IS 149 0 0 0 0 +IS 150 1 1 0 0 +IS 151 0 0 0 0 +IS 152 0 0 0 0 +IS 153 0 0 0 0 +IS 154 0 0 0 0 +IS 155 0 0 0 0 +IS 156 0 0 0 0 +IS 157 0 0 0 0 +IS 158 1 1 0 0 +IS 159 3 3 0 0 +IS 160 0 0 0 0 +IS 161 0 0 0 0 +IS 162 0 0 0 0 +IS 163 0 0 0 0 +IS 164 0 0 0 0 +IS 165 0 0 0 0 +IS 166 2 2 0 0 +IS 167 0 0 0 0 +IS 168 2 2 0 0 +IS 169 0 0 0 0 +IS 170 0 0 0 0 +IS 171 1 1 0 0 +IS 172 1 1 0 0 +IS 173 0 0 0 0 +IS 174 1 1 0 0 +IS 175 0 0 0 0 +IS 176 0 0 0 0 +IS 177 1 1 0 0 +IS 178 1 1 0 0 +IS 179 0 0 0 0 +IS 180 2 2 0 0 +IS 181 0 0 0 0 +IS 182 0 0 0 0 +IS 183 0 0 0 0 +IS 184 0 0 0 0 +IS 185 1 1 0 0 +IS 186 0 0 0 0 +IS 187 1 1 0 0 +IS 188 0 0 0 0 +IS 189 1 1 0 0 +IS 190 0 0 0 0 +IS 191 1 1 0 0 +IS 192 0 0 0 0 +IS 193 0 0 0 0 +IS 194 0 0 0 0 +IS 195 1 1 0 0 +IS 196 0 0 0 0 +IS 197 1 1 0 0 +IS 198 1 1 0 0 +IS 199 0 0 0 0 +IS 200 0 0 0 0 +IS 201 2 2 0 0 +IS 202 1 1 0 0 +IS 203 0 0 0 0 +IS 204 1 1 0 0 +IS 205 0 0 0 0 +IS 206 0 0 0 0 +IS 207 0 0 0 0 +IS 208 0 0 0 0 +IS 209 1 1 0 0 +IS 210 0 0 0 0 +IS 211 0 0 0 0 +IS 212 0 0 0 0 +IS 213 0 0 0 0 +IS 214 1 1 0 0 +IS 215 0 0 0 0 +IS 216 0 0 0 0 +IS 217 0 0 0 0 +IS 218 1 1 0 0 +IS 219 1 1 0 0 +IS 220 0 0 0 0 +IS 221 0 0 0 0 +IS 222 1 1 0 0 +IS 223 0 0 0 0 +IS 224 0 0 0 0 +IS 225 0 0 0 0 +IS 226 0 0 0 0 +IS 227 1 1 0 0 +IS 228 0 0 0 0 +IS 229 0 0 0 0 +IS 230 0 0 0 0 +IS 231 1 1 0 0 +IS 232 1 1 0 0 +IS 233 1 1 0 0 +IS 234 2 2 0 0 +IS 235 3 3 0 0 +IS 236 1 1 0 0 +IS 237 0 0 0 0 +IS 238 2 2 0 0 +IS 239 0 0 0 0 +IS 240 1 1 0 0 +IS 241 0 0 0 0 +IS 242 0 0 0 0 +IS 243 0 0 0 0 +IS 244 1 1 0 0 +IS 245 1 1 0 0 +IS 246 1 1 0 0 +IS 247 2 2 0 0 +IS 248 0 0 0 0 +IS 249 1 1 0 0 +IS 250 0 0 0 0 +IS 251 1 1 0 0 +IS 252 0 0 0 0 +IS 253 0 0 0 0 +IS 254 1 1 0 0 +IS 255 1 1 0 0 +IS 256 0 0 0 0 +IS 257 0 0 0 0 +IS 258 0 0 0 0 +IS 259 1 1 0 0 +IS 260 0 0 0 0 +IS 261 0 0 0 0 +IS 262 0 0 0 0 +IS 263 0 0 0 0 +IS 264 0 0 0 0 +IS 265 0 0 0 0 +IS 266 1 1 0 0 +IS 267 1 1 0 0 +IS 268 1 1 0 0 +IS 269 0 0 0 0 +IS 270 0 0 0 0 +IS 271 0 0 0 0 +IS 272 2 2 0 0 +IS 273 0 0 0 0 +IS 274 0 0 0 0 +IS 275 0 0 0 0 +IS 276 1 1 0 0 +IS 277 0 0 0 0 +IS 278 1 1 0 0 +IS 279 0 0 0 0 +IS 280 0 0 0 0 +IS 281 1 1 0 0 +IS 282 1 1 0 0 +IS 283 0 0 0 0 +IS 284 1 1 0 0 +IS 285 0 0 0 0 +IS 286 0 0 0 0 +IS 287 0 0 0 0 +IS 288 0 0 0 0 +IS 289 0 0 0 0 +IS 290 0 0 0 0 +IS 291 1 1 0 0 +IS 292 0 0 0 0 +IS 293 0 0 0 0 +IS 294 1 1 0 0 +IS 295 0 0 0 0 +IS 296 0 0 0 0 +IS 297 0 0 0 0 +IS 298 0 0 0 0 +IS 299 0 0 0 0 +IS 300 0 0 0 0 +IS 301 0 0 0 0 +IS 302 0 0 0 0 +IS 303 0 0 0 0 +IS 304 1 1 0 0 +IS 305 1 1 0 0 +IS 306 0 0 0 0 +IS 307 0 0 0 0 +IS 308 0 0 0 0 +IS 309 0 0 0 0 +IS 310 1 1 0 0 +IS 311 0 0 0 0 +IS 312 0 0 0 0 +IS 313 0 0 0 0 +IS 314 1 1 0 0 +IS 315 0 0 0 0 +IS 316 0 0 0 0 +IS 317 0 0 0 0 +IS 318 1 1 0 0 +IS 319 0 0 0 0 +IS 320 1 1 0 0 +IS 321 0 0 0 0 +IS 322 0 0 0 0 +IS 323 0 0 0 0 +IS 324 0 0 0 0 +IS 325 0 0 0 0 +IS 326 0 0 0 0 +IS 327 0 0 0 0 +IS 328 0 0 0 0 +IS 329 0 0 0 0 +IS 330 0 0 0 0 +IS 331 0 0 0 0 +IS 332 0 0 0 0 +IS 333 0 0 0 0 +IS 334 0 0 0 0 +IS 335 0 0 0 0 +IS 336 0 0 0 0 +IS 337 0 0 0 0 +IS 338 0 0 0 0 +IS 339 1 1 0 0 +IS 340 0 0 0 0 +IS 341 0 0 0 0 +IS 342 0 0 0 0 +IS 343 1 1 0 0 +IS 344 0 0 0 0 +IS 345 0 0 0 0 +IS 346 0 0 0 0 +IS 347 0 0 0 0 +IS 348 0 0 0 0 +IS 349 0 0 0 0 +IS 350 0 0 0 0 +IS 351 0 0 0 0 +IS 352 0 0 0 0 +IS 353 0 0 0 0 +IS 354 0 0 0 0 +IS 355 0 0 0 0 +IS 356 0 0 0 0 +IS 357 0 0 0 0 +IS 358 0 0 0 0 +IS 359 0 0 0 0 +IS 360 0 0 0 0 +IS 361 0 0 0 0 +IS 362 0 0 0 0 +IS 363 0 0 0 0 +IS 364 1 1 0 0 +# Read lengths. Use `grep ^RL | cut -f 2-` to extract this part. The columns are: read length, count +RL 53 1 +RL 66 1 +RL 68 1 +RL 69 1 +RL 72 1 +RL 77 3 +RL 79 2 +RL 80 1 +RL 82 1 +RL 89 1 +RL 92 2 +RL 94 1 +RL 95 2 +RL 98 4 +RL 101 2 +RL 105 1 +RL 106 5 +RL 107 1 +RL 112 1 +RL 116 1 +RL 117 1 +RL 119 1 +RL 122 2 +RL 125 2 +RL 126 1 +RL 127 1 +RL 129 2 +RL 132 2 +RL 136 1 +RL 139 3 +RL 140 1 +RL 141 1 +RL 142 3 +RL 145 1 +RL 146 2 +RL 147 8 +RL 148 8 +RL 149 16 +RL 150 62 +RL 151 49 +# Read lengths - first fragments. Use `grep ^FRL | cut -f 2-` to extract this part. The columns are: read length, count +FRL 72 1 +FRL 77 2 +FRL 79 2 +FRL 80 1 +FRL 89 1 +FRL 92 1 +FRL 94 1 +FRL 95 1 +FRL 98 2 +FRL 106 2 +FRL 107 1 +FRL 119 1 +FRL 122 1 +FRL 125 1 +FRL 127 1 +FRL 129 1 +FRL 132 1 +FRL 139 2 +FRL 141 1 +FRL 142 2 +FRL 146 2 +FRL 147 5 +FRL 148 3 +FRL 149 9 +FRL 150 26 +FRL 151 29 +# Read lengths - last fragments. Use `grep ^LRL | cut -f 2-` to extract this part. The columns are: read length, count +LRL 53 1 +LRL 66 1 +LRL 68 1 +LRL 69 1 +LRL 77 1 +LRL 82 1 +LRL 92 1 +LRL 95 1 +LRL 98 2 +LRL 101 2 +LRL 105 1 +LRL 106 3 +LRL 112 1 +LRL 116 1 +LRL 117 1 +LRL 122 1 +LRL 125 1 +LRL 126 1 +LRL 129 1 +LRL 132 1 +LRL 136 1 +LRL 139 1 +LRL 140 1 +LRL 142 1 +LRL 145 1 +LRL 147 3 +LRL 148 5 +LRL 149 7 +LRL 150 36 +LRL 151 20 +# Mapping qualities for reads !(UNMAP|SECOND|SUPPL|QCFAIL|DUP). Use `grep ^MAPQ | cut -f 2-` to extract this part. The columns are: mapq, count +MAPQ 1 1 +MAPQ 36 1 +MAPQ 37 1 +MAPQ 38 2 +MAPQ 48 14 +MAPQ 49 1 +MAPQ 50 5 +MAPQ 51 1 +MAPQ 52 1 +MAPQ 55 2 +MAPQ 57 1 +MAPQ 59 1 +MAPQ 60 166 +# Indel distribution. Use `grep ^ID | cut -f 2-` to extract this part. The columns are: length, number of insertions, number of deletions +ID 1 0 8 +ID 2 0 1 +ID 32 0 1 +# Indels per cycle. Use `grep ^IC | cut -f 2-` to extract this part. The columns are: cycle, number of insertions (fwd), .. (rev) , number of deletions (fwd), .. (rev) +IC 5 0 0 1 0 +IC 7 0 0 1 1 +IC 72 0 0 1 0 +IC 85 0 0 1 0 +IC 97 0 0 1 0 +IC 107 0 0 0 1 +IC 121 0 0 0 1 +IC 135 0 0 0 1 +IC 137 0 0 1 0 +# Coverage distribution. Use `grep ^COV | cut -f 2-` to extract this part. +COV [1-1] 1 5542 +COV [2-2] 2 3794 +COV [3-3] 3 1571 +COV [4-4] 4 944 +COV [5-5] 5 491 +COV [6-6] 6 377 +COV [7-7] 7 50 +COV [8-8] 8 39 +COV [9-9] 9 27 +COV [10-10] 10 16 +# GC-depth. Use `grep ^GCD | cut -f 2-` to extract this part. The columns are: GC%, unique sequence percentiles, 10th, 25th, 50th, 75th and 90th depth percentile +GCD 0.0 66.667 0.000 0.000 0.000 0.000 0.000 +GCD 19.2 100.000 0.318 0.318 0.318 0.318 0.318 diff --git a/src/samtools/samtools_stats/test_data/script.sh b/src/samtools/samtools_stats/test_data/script.sh new file mode 100755 index 00000000..aed1fefb --- /dev/null +++ b/src/samtools/samtools_stats/test_data/script.sh @@ -0,0 +1,6 @@ +#!/bin/bash + +# dowload test data from nf-core module +wget https://github.com/nf-core/test-datasets/raw/modules/data/genomics/sarscov2/illumina/bam/test.paired_end.sorted.bam +wget https://github.com/nf-core/test-datasets/raw/modules/data/genomics/sarscov2/illumina/bam/test.paired_end.sorted.bam.bai +# samtools stats test.paired_end.sorted.bam > ref.paired_end.sorted.txt \ No newline at end of file diff --git a/src/samtools/samtools_stats/test_data/test.paired_end.sorted.bam b/src/samtools/samtools_stats/test_data/test.paired_end.sorted.bam new file mode 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