SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308509_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: 100878). Second best hit was Nextera (count: 1) 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 ERR12308509_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1520.953 s (19.332 µs/read; 3.10 M reads/minute). === Summary === Total reads processed: 78,676,948 Reads with adapters: 37,348,153 (47.5%) Reads written (passing filters): 78,676,948 (100.0%) Total basepairs processed: 11,880,219,148 bp Quality-trimmed: 34,835,694 bp (0.3%) Total written (filtered): 11,482,786,502 bp (96.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 37348153 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 36.8% C: 1.4% G: 15.8% T: 45.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 21287563 19669237.0 0 21287563 2 3567187 4917309.2 0 3567187 3 1588384 1229327.3 0 1588384 4 733001 307331.8 0 733001 5 265817 76833.0 0 265817 6 228112 19208.2 0 228112 7 223021 4802.1 0 223021 8 247863 1200.5 0 247863 9 214429 300.1 0 213314 1115 10 231704 75.0 1 212414 19290 11 244717 18.8 1 217889 26828 12 253190 4.7 1 228868 24322 13 213690 1.2 1 196277 17413 14 226646 1.2 1 201899 24747 15 228699 1.2 1 209478 19221 16 217414 1.2 1 192920 24494 17 242664 1.2 1 214836 27828 18 280760 1.2 1 259880 20880 19 122822 1.2 1 113539 9283 20 208359 1.2 1 191826 16533 21 213185 1.2 1 195819 17366 22 181218 1.2 1 167314 13904 23 212042 1.2 1 194497 17545 24 192982 1.2 1 171963 21019 25 195454 1.2 1 181495 13959 26 165698 1.2 1 155034 10664 27 195105 1.2 1 180012 15093 28 176181 1.2 1 165178 11003 29 183025 1.2 1 166985 16040 30 207089 1.2 1 194305 12784 31 119099 1.2 1 112003 7096 32 168247 1.2 1 158173 10074 33 155123 1.2 1 143810 11313 34 158527 1.2 1 148248 10279 35 177464 1.2 1 162391 15073 36 126205 1.2 1 119089 7116 37 150074 1.2 1 139622 10452 38 168910 1.2 1 156469 12441 39 140415 1.2 1 134141 6274 40 134854 1.2 1 121112 13742 41 115506 1.2 1 109071 6435 42 132050 1.2 1 124860 7190 43 171466 1.2 1 157384 14082 44 86480 1.2 1 80252 6228 45 194874 1.2 1 185828 9046 46 36952 1.2 1 33705 3247 47 110281 1.2 1 103980 6301 48 197300 1.2 1 186548 10752 49 65429 1.2 1 61439 3990 50 120201 1.2 1 112573 7628 51 119949 1.2 1 112883 7066 52 88382 1.2 1 84575 3807 53 76189 1.2 1 72685 3504 54 178947 1.2 1 171985 6962 55 101402 1.2 1 98100 3302 56 25537 1.2 1 23584 1953 57 124532 1.2 1 121385 3147 58 32786 1.2 1 31357 1429 59 40841 1.2 1 39188 1653 60 48794 1.2 1 47529 1265 61 13801 1.2 1 12750 1051 62 72412 1.2 1 69548 2864 63 94799 1.2 1 92799 2000 64 15323 1.2 1 14535 788 65 23653 1.2 1 22393 1260 66 57986 1.2 1 56068 1918 67 42819 1.2 1 41202 1617 68 52237 1.2 1 50114 2123 69 52052 1.2 1 49600 2452 70 92927 1.2 1 89613 3314 71 9754 1.2 1 8877 877 72 5081 1.2 1 4669 412 73 15974 1.2 1 15346 628 74 25469 1.2 1 24543 926 75 29341 1.2 1 28228 1113 76 29553 1.2 1 28381 1172 77 28152 1.2 1 27090 1062 78 26671 1.2 1 25605 1066 79 25528 1.2 1 24509 1019 80 23641 1.2 1 22683 958 81 22495 1.2 1 21573 922 82 21337 1.2 1 20486 851 83 19680 1.2 1 18897 783 84 18583 1.2 1 17877 706 85 17046 1.2 1 16343 703 86 15952 1.2 1 15343 609 87 14987 1.2 1 14356 631 88 13870 1.2 1 13354 516 89 12921 1.2 1 12394 527 90 11855 1.2 1 11375 480 91 11361 1.2 1 10918 443 92 10296 1.2 1 9869 427 93 9545 1.2 1 9149 396 94 8691 1.2 1 8365 326 95 8158 1.2 1 7800 358 96 7435 1.2 1 7171 264 97 6837 1.2 1 6567 270 98 6220 1.2 1 5981 239 99 5803 1.2 1 5557 246 100 5368 1.2 1 5166 202 101 4896 1.2 1 4712 184 102 4426 1.2 1 4253 173 103 4023 1.2 1 3836 187 104 3528 1.2 1 3381 147 105 3351 1.2 1 3203 148 106 2898 1.2 1 2773 125 107 2577 1.2 1 2456 121 108 2287 1.2 1 2201 86 109 1977 1.2 1 1867 110 110 1838 1.2 1 1765 73 111 1629 1.2 1 1545 84 112 1467 1.2 1 1385 82 113 1157 1.2 1 1089 68 114 1026 1.2 1 950 76 115 873 1.2 1 798 75 116 773 1.2 1 728 45 117 575 1.2 1 530 45 118 530 1.2 1 481 49 119 439 1.2 1 404 35 120 411 1.2 1 370 41 121 434 1.2 1 390 44 122 296 1.2 1 253 43 123 221 1.2 1 190 31 124 211 1.2 1 185 26 125 194 1.2 1 160 34 126 173 1.2 1 145 28 127 169 1.2 1 141 28 128 177 1.2 1 142 35 129 152 1.2 1 126 26 130 125 1.2 1 98 27 131 128 1.2 1 114 14 132 83 1.2 1 65 18 133 119 1.2 1 99 20 134 99 1.2 1 78 21 135 91 1.2 1 82 9 136 81 1.2 1 68 13 137 91 1.2 1 74 17 138 78 1.2 1 65 13 139 55 1.2 1 46 9 140 53 1.2 1 42 11 141 70 1.2 1 50 20 142 45 1.2 1 29 16 143 54 1.2 1 34 20 144 32 1.2 1 16 16 145 53 1.2 1 35 18 146 49 1.2 1 24 25 147 58 1.2 1 31 27 148 55 1.2 1 32 23 149 57 1.2 1 41 16 150 63 1.2 1 25 38 151 3456 1.2 1 43 3413 RUN STATISTICS FOR INPUT FILE: ERR12308509_2.fastq.gz ============================================= 78676948 sequences processed in total