SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913500_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 32013). Second best hit was smallRNA (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) 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 Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR13913500_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1598.831 s (18.244 µs/read; 3.29 M reads/minute). === Summary === Total reads processed: 87,636,960 Reads with adapters: 45,721,271 (52.2%) Reads written (passing filters): 87,636,960 (100.0%) Total basepairs processed: 13,145,544,000 bp Quality-trimmed: 50,696,357 bp (0.4%) Total written (filtered): 12,949,716,410 bp (98.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 45721271 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.8% C: 17.2% G: 0.3% T: 29.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 42121185 21909240.0 0 42121185 2 122432 5477310.0 0 122432 3 119295 1369327.5 0 119295 4 95476 342331.9 0 95476 5 89134 85583.0 0 89134 6 78152 21395.7 0 78152 7 81194 5348.9 0 81194 8 86831 1337.2 0 86831 9 68862 334.3 0 68840 22 10 80416 83.6 1 75493 4923 11 77506 20.9 1 72047 5459 12 76930 5.2 1 55098 21832 13 73193 1.3 1 51827 21366 14 77771 1.3 1 55033 22738 15 68854 1.3 1 48851 20003 16 71440 1.3 1 50867 20573 17 84357 1.3 1 60363 23994 18 54889 1.3 1 39415 15474 19 82775 1.3 1 60152 22623 20 64576 1.3 1 46054 18522 21 54436 1.3 1 39350 15086 22 63468 1.3 1 45696 17772 23 61561 1.3 1 44189 17372 24 72526 1.3 1 52570 19956 25 70839 1.3 1 51207 19632 26 46600 1.3 1 33844 12756 27 53260 1.3 1 38791 14469 28 58500 1.3 1 43049 15451 29 54802 1.3 1 40059 14743 30 56032 1.3 1 41688 14344 31 53700 1.3 1 39671 14029 32 52532 1.3 1 38964 13568 33 51339 1.3 1 37980 13359 34 52794 1.3 1 39006 13788 35 46584 1.3 1 34745 11839 36 48444 1.3 1 36256 12188 37 48576 1.3 1 36450 12126 38 45621 1.3 1 34393 11228 39 44376 1.3 1 33339 11037 40 45691 1.3 1 34745 10946 41 40294 1.3 1 30358 9936 42 40842 1.3 1 31306 9536 43 39065 1.3 1 29554 9511 44 39350 1.3 1 30102 9248 45 36562 1.3 1 28113 8449 46 35963 1.3 1 27732 8231 47 36341 1.3 1 27907 8434 48 35779 1.3 1 27433 8346 49 32053 1.3 1 24831 7222 50 31849 1.3 1 24648 7201 51 32725 1.3 1 25387 7338 52 29179 1.3 1 22845 6334 53 29892 1.3 1 23324 6568 54 28198 1.3 1 21993 6205 55 26675 1.3 1 20913 5762 56 27371 1.3 1 21564 5807 57 24341 1.3 1 19148 5193 58 24537 1.3 1 19278 5259 59 30161 1.3 1 24082 6079 60 18222 1.3 1 14220 4002 61 20503 1.3 1 16371 4132 62 23108 1.3 1 18606 4502 63 19319 1.3 1 15306 4013 64 17788 1.3 1 14297 3491 65 31860 1.3 1 25943 5917 66 13214 1.3 1 10479 2735 67 12100 1.3 1 9684 2416 68 12425 1.3 1 10079 2346 69 16790 1.3 1 13753 3037 70 15719 1.3 1 12649 3070 71 12431 1.3 1 10117 2314 72 13163 1.3 1 10845 2318 73 12049 1.3 1 9806 2243 74 11371 1.3 1 9309 2062 75 14023 1.3 1 11546 2477 76 9860 1.3 1 8062 1798 77 7596 1.3 1 6202 1394 78 2278 1.3 1 1845 433 79 5133 1.3 1 4249 884 80 5916 1.3 1 4942 974 81 5579 1.3 1 4721 858 82 5111 1.3 1 4265 846 83 4515 1.3 1 3796 719 84 4114 1.3 1 3439 675 85 3734 1.3 1 3116 618 86 3231 1.3 1 2702 529 87 2881 1.3 1 2396 485 88 2395 1.3 1 1965 430 89 2147 1.3 1 1799 348 90 1851 1.3 1 1513 338 91 1593 1.3 1 1294 299 92 1449 1.3 1 1195 254 93 1057 1.3 1 853 204 94 909 1.3 1 716 193 95 832 1.3 1 678 154 96 675 1.3 1 524 151 97 603 1.3 1 450 153 98 484 1.3 1 362 122 99 427 1.3 1 303 124 100 399 1.3 1 282 117 101 308 1.3 1 218 90 102 274 1.3 1 201 73 103 223 1.3 1 151 72 104 238 1.3 1 163 75 105 169 1.3 1 111 58 106 207 1.3 1 126 81 107 176 1.3 1 108 68 108 157 1.3 1 86 71 109 154 1.3 1 97 57 110 125 1.3 1 72 53 111 121 1.3 1 72 49 112 134 1.3 1 74 60 113 104 1.3 1 60 44 114 129 1.3 1 79 50 115 102 1.3 1 61 41 116 105 1.3 1 63 42 117 105 1.3 1 60 45 118 119 1.3 1 71 48 119 111 1.3 1 69 42 120 83 1.3 1 44 39 121 90 1.3 1 70 20 122 101 1.3 1 56 45 123 81 1.3 1 49 32 124 104 1.3 1 66 38 125 70 1.3 1 44 26 126 78 1.3 1 53 25 127 61 1.3 1 40 21 128 74 1.3 1 57 17 129 60 1.3 1 35 25 130 44 1.3 1 34 10 131 52 1.3 1 40 12 132 33 1.3 1 23 10 133 33 1.3 1 26 7 134 33 1.3 1 23 10 135 21 1.3 1 17 4 136 21 1.3 1 17 4 137 21 1.3 1 12 9 138 19 1.3 1 13 6 139 19 1.3 1 13 6 140 17 1.3 1 12 5 141 14 1.3 1 7 7 142 8 1.3 1 3 5 143 13 1.3 1 9 4 144 10 1.3 1 5 5 145 16 1.3 1 12 4 146 12 1.3 1 6 6 147 11 1.3 1 6 5 148 7 1.3 1 5 2 149 7 1.3 1 3 4 150 17 1.3 1 8 9 RUN STATISTICS FOR INPUT FILE: ERR13913500_2.fastq.gz ============================================= 87636960 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 87636960 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 16344 (0.02%)