cutadapt -e 0.17 -g CAGATC -j 16 --action=none -o untrimmed_SC2_R1_001.fastq.gz -p untrimmed_SC2_R2_001.fastq.gz Undetermined_S0_R1_001.fastq.gz Undetermined_S0_R2_001.fastq.gz This is cutadapt 2.6 with Python 3.7.16 Command line parameters: -e 0.17 -g CAGATC -j 16 --action=none -o untrimmed_SC2_R1_001.fastq.gz -p untrimmed_SC2_R2_001.fastq.gz Undetermined_S0_R1_001.fastq.gz Undetermined_S0_R2_001.fastq.gz Processing reads on 16 cores in paired-end mode ... [------->8 ] 02:32:21 533,660,953 reads @ 17.1 µs/read; 3.50 M reads/minute Finished in 9142.00 s (17 us/read; 3.50 M reads/minute). === Summary === Total read pairs processed: 533,660,953 Read 1 with adapter: 366,369,410 (68.7%) Read 2 with adapter: 0 (0.0%) Pairs written (passing filters): 533,660,953 (100.0%) Total basepairs processed: 159,570,593,183 bp Read 1: 79,900,650,894 bp Read 2: 79,669,942,289 bp Total written (filtered): 159,570,593,183 bp (100.0%) Read 1: 79,900,650,894 bp Read 2: 79,669,942,289 bp === First read: Adapter 1 === Sequence: CAGATC; Type: regular 5'; Length: 6; Trimmed: 366369410 times. No. of allowed errors: 0-4 bp: 0; 5-6 bp: 1 Overview of removed sequences length count expect max.err error counts 3 4129252 8338452.4 0 4129252 4 7646650 2084613.1 0 7646650 5 1845738 521153.3 0 123769 1721969 6 2409881 130288.3 1 50288 2359593 7 3410130 130288.3 1 27766 3382364 8 4708182 130288.3 1 85476 4622706 9 3737555 130288.3 1 41729 3695826 10 3423886 130288.3 1 38185 3385701 11 3284317 130288.3 1 24817 3259500 12 3387248 130288.3 1 32442 3354806 13 3460885 130288.3 1 28493 3432392 14 3173891 130288.3 1 35942 3137949 15 3468199 130288.3 1 29806 3438393 16 3199610 130288.3 1 30502 3169108 17 3176656 130288.3 1 31475 3145181 18 3233521 130288.3 1 31895 3201626 19 3162285 130288.3 1 31096 3131189 20 3074744 130288.3 1 30530 3044214 21 3111294 130288.3 1 30012 3081282 22 3074916 130288.3 1 33984 3040932 23 3167440 130288.3 1 32242 3135198 24 3117036 130288.3 1 34326 3082710 25 3222227 130288.3 1 32842 3189385 26 3006686 130288.3 1 30888 2975798 27 3036384 130288.3 1 32805 3003579 28 3165575 130288.3 1 43398 3122177 29 3045095 130288.3 1 31534 3013561 30 2876341 130288.3 1 33420 2842921 31 3221682 130288.3 1 32274 3189408 32 3012430 130288.3 1 30262 2982168 33 2856114 130288.3 1 31765 2824349 34 3040430 130288.3 1 33986 3006444 35 2988011 130288.3 1 40271 2947740 36 2901786 130288.3 1 34411 2867375 37 3032871 130288.3 1 36227 2996644 38 2880758 130288.3 1 32076 2848682 39 2904770 130288.3 1 32863 2871907 40 2902773 130288.3 1 35623 2867150 41 2841591 130288.3 1 37566 2804025 42 2750449 130288.3 1 35487 2714962 43 2781977 130288.3 1 36127 2745850 44 2828705 130288.3 1 35269 2793436 45 2735683 130288.3 1 40676 2695007 46 2883712 130288.3 1 38533 2845179 47 2705726 130288.3 1 35736 2669990 48 2720029 130288.3 1 37697 2682332 49 2707993 130288.3 1 37736 2670257 50 2674405 130288.3 1 37575 2636830 51 2700754 130288.3 1 38962 2661792 52 2760374 130288.3 1 36422 2723952 53 2730481 130288.3 1 37498 2692983 54 2709011 130288.3 1 37313 2671698 55 2807469 130288.3 1 43512 2763957 56 2642853 130288.3 1 36865 2605988 57 2705226 130288.3 1 39173 2666053 58 2783862 130288.3 1 40955 2742907 59 2588179 130288.3 1 38789 2549390 60 2590044 130288.3 1 39481 2550563 61 2691674 130288.3 1 38991 2652683 62 2698621 130288.3 1 39395 2659226 63 2596198 130288.3 1 40898 2555300 64 2552573 130288.3 1 41630 2510943 65 2514064 130288.3 1 39441 2474623 66 2385359 130288.3 1 42109 2343250 67 2525050 130288.3 1 42358 2482692 68 2476129 130288.3 1 40462 2435667 69 2450801 130288.3 1 42070 2408731 70 2310079 130288.3 1 42335 2267744 71 2319077 130288.3 1 41466 2277611 72 2269870 130288.3 1 42960 2226910 73 2378239 130288.3 1 43848 2334391 74 2295183 130288.3 1 40982 2254201 75 2236244 130288.3 1 43928 2192316 76 2301224 130288.3 1 43377 2257847 77 2426948 130288.3 1 42437 2384511 78 2431607 130288.3 1 47264 2384343 79 2433555 130288.3 1 43852 2389703 80 2486048 130288.3 1 42013 2444035 81 2395350 130288.3 1 43180 2352170 82 2342095 130288.3 1 45859 2296236 83 2421839 130288.3 1 43807 2378032 84 2424692 130288.3 1 45310 2379382 85 2278501 130288.3 1 47284 2231217 86 2321417 130288.3 1 46309 2275108 87 2308102 130288.3 1 47113 2260989 88 2277753 130288.3 1 50658 2227095 89 2157192 130288.3 1 46365 2110827 90 2196102 130288.3 1 46058 2150044 91 2188671 130288.3 1 47188 2141483 92 2214614 130288.3 1 46106 2168508 93 2246316 130288.3 1 47528 2198788 94 2263535 130288.3 1 47591 2215944 95 2166052 130288.3 1 47128 2118924 96 2111815 130288.3 1 48902 2062913 97 2255005 130288.3 1 50308 2204697 98 2161400 130288.3 1 65820 2095580 99 2905796 130288.3 1 820307 2085489 100 2201398 130288.3 1 52071 2149327 101 2096056 130288.3 1 48838 2047218 102 2027872 130288.3 1 50438 1977434 103 1991376 130288.3 1 50835 1940541 104 1883888 130288.3 1 50284 1833604 105 1991537 130288.3 1 51289 1940248 106 2140266 130288.3 1 50983 2089283 107 2090237 130288.3 1 50371 2039866 108 1996324 130288.3 1 53298 1943026 109 1977701 130288.3 1 53830 1923871 110 1966696 130288.3 1 52342 1914354 111 1946522 130288.3 1 53239 1893283 112 1980811 130288.3 1 54210 1926601 113 2023118 130288.3 1 55356 1967762 114 1892072 130288.3 1 54978 1837094 115 1987856 130288.3 1 56297 1931559 116 1988780 130288.3 1 56275 1932505 117 1932942 130288.3 1 57630 1875312 118 1924699 130288.3 1 57819 1866880 119 1976073 130288.3 1 56607 1919466 120 1899512 130288.3 1 58353 1841159 121 1892755 130288.3 1 59604 1833151 122 1920595 130288.3 1 57957 1862638 123 1847477 130288.3 1 59296 1788181 124 1827690 130288.3 1 58338 1769352 125 1834331 130288.3 1 59450 1774881 126 1828878 130288.3 1 61589 1767289 127 1806160 130288.3 1 61459 1744701 128 1762321 130288.3 1 60914 1701407 129 1825608 130288.3 1 61732 1763876 130 1790010 130288.3 1 63868 1726142 131 1788939 130288.3 1 62407 1726532 132 1769867 130288.3 1 62415 1707452 133 1867108 130288.3 1 63733 1803375 134 1764861 130288.3 1 64954 1699907 135 1745673 130288.3 1 64690 1680983 136 1810610 130288.3 1 65605 1745005 137 1718131 130288.3 1 65977 1652154 138 1684145 130288.3 1 65827 1618318 139 1674152 130288.3 1 66705 1607447 140 1694347 130288.3 1 66983 1627364 141 1639021 130288.3 1 69882 1569139 142 1676546 130288.3 1 39718 1636828 143 1638145 130288.3 1 42126 1596019 144 1560693 130288.3 1 36237 1524456 145 1549959 130288.3 1 35874 1514085 146 1548235 130288.3 1 37682 1510553 147 1521492 130288.3 1 40895 1480597 148 1593431 130288.3 1 39020 1554411 149 1472959 130288.3 1 35633 1437326 150 1445381 130288.3 1 14452 1430929 151 1393592 130288.3 1 0 1393592