SUMMARISING RUN PARAMETERS ========================== Input filename: heart_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.7 Cutadapt version: 3.4 Python version: could not detect Number of cores used for trimming: 4 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 2296). Second best hit was Nextera (count: 8) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) 2-colour high quality G-trimming enabled, with quality cutoff: --nextseq-trim=20 Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Running FastQC on the data once trimming has completed Output file will be GZIP compressed This is cutadapt 3.4 with Python 3.9.6 Command line parameters: -j 4 -e 0.1 --nextseq-trim=20 -O 1 -a AGATCGGAAGAGC heart_2.fastq.gz Processing reads on 4 cores in single-end mode ... Finished in 1074.21 s (10 µs/read; 5.85 M reads/minute). === Summary === Total reads processed: 104,706,949 Reads with adapters: 28,332,835 (27.1%) Reads written (passing filters): 104,706,949 (100.0%) Total basepairs processed: 14,951,500,944 bp Quality-trimmed: 279,781,503 bp (1.9%) Total written (filtered): 14,580,918,718 bp (97.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 28332835 times No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 40.2% C: 24.2% G: 15.1% T: 20.5% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 25090948 26176737.2 0 25090948 3 1733100 1636046.1 0 1733100 4 494609 409011.5 0 494609 5 131486 102252.9 0 131486 8 7996 1597.7 0 7996 9 8826 399.4 0 8826 10 776 99.9 1 0 776 11 13917 25.0 1 5587 8330 12 5337 6.2 1 0 5337 13 33364 1.6 1 14426 18938 14 4714 1.6 1 381 4333 15 9595 1.6 1 3504 6091 16 17956 1.6 1 5493 12463 17 7926 1.6 1 2497 5429 18 3623 1.6 1 1108 2515 19 9851 1.6 1 4794 5057 20 10971 1.6 1 5448 5523 21 8259 1.6 1 4089 4170 22 6790 1.6 1 4079 2711 23 570 1.6 1 446 124 24 4285 1.6 1 2653 1632 25 12658 1.6 1 7436 5222 26 13125 1.6 1 7376 5749 27 12237 1.6 1 7145 5092 28 7799 1.6 1 5601 2198 29 4029 1.6 1 1980 2049 30 10042 1.6 1 7354 2688 31 2612 1.6 1 1678 934 32 28833 1.6 1 21819 7014 33 2885 1.6 1 1126 1759 34 14463 1.6 1 10209 4254 35 628 1.6 1 404 224 36 1132 1.6 1 627 505 37 2992 1.6 1 2195 797 38 5321 1.6 1 3615 1706 39 16357 1.6 1 12007 4350 40 5128 1.6 1 2647 2481 41 8503 1.6 1 6262 2241 42 9144 1.6 1 6997 2147 43 855 1.6 1 362 493 44 5245 1.6 1 3834 1411 45 2081 1.6 1 1595 486 46 6189 1.6 1 4618 1571 47 2245 1.6 1 1376 869 48 6292 1.6 1 4708 1584 49 8504 1.6 1 6302 2202 50 2969 1.6 1 1759 1210 51 6038 1.6 1 4542 1496 52 877 1.6 1 574 303 53 2750 1.6 1 1986 764 54 4195 1.6 1 3152 1043 55 2091 1.6 1 1289 802 56 4392 1.6 1 3170 1222 57 4000 1.6 1 2937 1063 58 3085 1.6 1 2075 1010 59 3794 1.6 1 2639 1155 60 2672 1.6 1 1792 880 61 2461 1.6 1 1631 830 62 2293 1.6 1 1558 735 63 2217 1.6 1 1501 716 64 2352 1.6 1 1535 817 65 2264 1.6 1 1380 884 66 2598 1.6 1 1494 1104 67 15699 1.6 1 2548 13151 68 32329 1.6 1 2744 29585 69 33759 1.6 1 2428 31331 70 40935 1.6 1 1957 38978 71 32940 1.6 1 1256 31684 72 26059 1.6 1 817 25242 73 18389 1.6 1 618 17771 74 13847 1.6 1 476 13371 75 12805 1.6 1 394 12411 76 9337 1.6 1 342 8995 77 8526 1.6 1 329 8197 78 9342 1.6 1 299 9043 79 9696 1.6 1 256 9440 80 10606 1.6 1 236 10370 81 10218 1.6 1 241 9977 82 8967 1.6 1 212 8755 83 8007 1.6 1 221 7786 84 7342 1.6 1 174 7168 85 6291 1.6 1 157 6134 86 4969 1.6 1 150 4819 87 4509 1.6 1 161 4348 88 3933 1.6 1 133 3800 89 3253 1.6 1 132 3121 90 2958 1.6 1 126 2832 91 2669 1.6 1 144 2525 92 2214 1.6 1 117 2097 93 2028 1.6 1 122 1906 94 1821 1.6 1 105 1716 95 1567 1.6 1 107 1460 96 1404 1.6 1 83 1321 97 1260 1.6 1 94 1166 98 1173 1.6 1 114 1059 99 1068 1.6 1 91 977 100 1090 1.6 1 99 991 101 1039 1.6 1 99 940 102 934 1.6 1 79 855 103 951 1.6 1 113 838 104 964 1.6 1 91 873 105 933 1.6 1 90 843 106 820 1.6 1 77 743 107 968 1.6 1 96 872 108 965 1.6 1 91 874 109 965 1.6 1 110 855 110 1001 1.6 1 89 912 111 1001 1.6 1 65 936 112 961 1.6 1 63 898 113 953 1.6 1 73 880 114 847 1.6 1 74 773 115 803 1.6 1 86 717 116 767 1.6 1 59 708 117 755 1.6 1 68 687 118 605 1.6 1 46 559 119 646 1.6 1 46 600 120 518 1.6 1 68 450 121 488 1.6 1 61 427 122 422 1.6 1 40 382 123 415 1.6 1 64 351 124 356 1.6 1 42 314 125 367 1.6 1 46 321 126 318 1.6 1 42 276 127 307 1.6 1 42 265 128 342 1.6 1 38 304 129 295 1.6 1 29 266 130 261 1.6 1 25 236 131 228 1.6 1 30 198 132 240 1.6 1 27 213 133 233 1.6 1 25 208 134 199 1.6 1 33 166 135 190 1.6 1 19 171 136 197 1.6 1 16 181 137 205 1.6 1 14 191 138 249 1.6 1 19 230 139 284 1.6 1 14 270 140 321 1.6 1 12 309 141 444 1.6 1 15 429 142 447 1.6 1 8 439 143 487 1.6 1 6 481 144 732 1.6 1 4 728 145 1045 1.6 1 4 1041 146 1509 1.6 1 7 1502 147 2752 1.6 1 9 2743 148 5983 1.6 1 5 5978 149 10773 1.6 1 3 10770 150 68809 1.6 1 10 68799 151 20285 1.6 1 0 20285 RUN STATISTICS FOR INPUT FILE: heart_2.fastq.gz ============================================= 104706949 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 104706949 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 792517 (0.76%)