SUMMARISING RUN PARAMETERS ========================== Input filename: ERR12308524_1.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: 120220). Second best hit was Nextera (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 ERR12308524_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1434.627 s (16.264 µs/read; 3.69 M reads/minute). === Summary === Total reads processed: 88,207,556 Reads with adapters: 42,450,702 (48.1%) Reads written (passing filters): 88,207,556 (100.0%) Total basepairs processed: 13,319,340,956 bp Quality-trimmed: 40,129,640 bp (0.3%) Total written (filtered): 12,802,549,113 bp (96.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 42450702 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 33.9% C: 1.5% G: 17.8% T: 46.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 21734651 22051889.0 0 21734651 2 4062030 5512972.2 0 4062030 3 1833720 1378243.1 0 1833720 4 912670 344560.8 0 912670 5 399676 86140.2 0 399676 6 335736 21535.0 0 335736 7 329948 5383.8 0 329948 8 359424 1345.9 0 359424 9 318341 336.5 0 316713 1628 10 327689 84.1 1 301711 25978 11 355144 21.0 1 314701 40443 12 363547 5.3 1 328910 34637 13 306469 1.3 1 281122 25347 14 339925 1.3 1 301920 38005 15 334333 1.3 1 306217 28116 16 323570 1.3 1 286417 37153 17 358982 1.3 1 317272 41710 18 388537 1.3 1 360064 28473 19 193557 1.3 1 179089 14468 20 285567 1.3 1 262697 22870 21 294429 1.3 1 269944 24485 22 243887 1.3 1 225750 18137 23 289082 1.3 1 264632 24450 24 267226 1.3 1 235999 31227 25 271407 1.3 1 251590 19817 26 225838 1.3 1 211148 14690 27 270742 1.3 1 249808 20934 28 254248 1.3 1 237102 17146 29 250560 1.3 1 226936 23624 30 278453 1.3 1 261672 16781 31 146400 1.3 1 137049 9351 32 219632 1.3 1 205268 14364 33 196847 1.3 1 180858 15989 34 246453 1.3 1 227305 19148 35 211600 1.3 1 202124 9476 36 134290 1.3 1 121076 13214 37 204123 1.3 1 191178 12945 38 172469 1.3 1 162320 10149 39 184299 1.3 1 169961 14338 40 180410 1.3 1 167613 12797 41 178666 1.3 1 166421 12245 42 182692 1.3 1 174070 8622 43 143669 1.3 1 129742 13927 44 136526 1.3 1 127009 9517 45 227255 1.3 1 216541 10714 46 57708 1.3 1 53023 4685 47 137901 1.3 1 130061 7840 48 173756 1.3 1 163262 10494 49 106484 1.3 1 100765 5719 50 130806 1.3 1 122087 8719 51 129837 1.3 1 120740 9097 52 117262 1.3 1 111080 6182 53 107017 1.3 1 101823 5194 54 131547 1.3 1 122650 8897 55 150090 1.3 1 143355 6735 56 55886 1.3 1 52244 3642 57 133957 1.3 1 128267 5690 58 110451 1.3 1 106336 4115 59 59811 1.3 1 56203 3608 60 93450 1.3 1 90791 2659 61 51103 1.3 1 48548 2555 62 90525 1.3 1 85881 4644 63 108963 1.3 1 105410 3553 64 57918 1.3 1 55776 2142 65 40576 1.3 1 38367 2209 66 74987 1.3 1 71904 3083 67 72898 1.3 1 69843 3055 68 78270 1.3 1 74926 3344 69 70862 1.3 1 67234 3628 70 124445 1.3 1 119477 4968 71 8863 1.3 1 8016 847 72 8828 1.3 1 8228 600 73 26641 1.3 1 25566 1075 74 37069 1.3 1 35572 1497 75 39690 1.3 1 38058 1632 76 39254 1.3 1 37640 1614 77 37852 1.3 1 36279 1573 78 35756 1.3 1 34248 1508 79 33814 1.3 1 32382 1432 80 32360 1.3 1 30951 1409 81 30096 1.3 1 28749 1347 82 28011 1.3 1 26849 1162 83 26528 1.3 1 25399 1129 84 24812 1.3 1 23748 1064 85 23265 1.3 1 22260 1005 86 21337 1.3 1 20499 838 87 19957 1.3 1 19100 857 88 18872 1.3 1 18087 785 89 17345 1.3 1 16606 739 90 16219 1.3 1 15548 671 91 15508 1.3 1 14850 658 92 14125 1.3 1 13578 547 93 12995 1.3 1 12440 555 94 12197 1.3 1 11690 507 95 10986 1.3 1 10554 432 96 10479 1.3 1 10077 402 97 9567 1.3 1 9191 376 98 8887 1.3 1 8530 357 99 8165 1.3 1 7802 363 100 7563 1.3 1 7243 320 101 7077 1.3 1 6754 323 102 6520 1.3 1 6246 274 103 5955 1.3 1 5710 245 104 5272 1.3 1 5050 222 105 4784 1.3 1 4581 203 106 4348 1.3 1 4171 177 107 3991 1.3 1 3794 197 108 3383 1.3 1 3218 165 109 3021 1.3 1 2888 133 110 2814 1.3 1 2682 132 111 2563 1.3 1 2443 120 112 2149 1.3 1 2036 113 113 1935 1.3 1 1838 97 114 1605 1.3 1 1506 99 115 1488 1.3 1 1407 81 116 1247 1.3 1 1181 66 117 1090 1.3 1 1033 57 118 998 1.3 1 931 67 119 764 1.3 1 708 56 120 835 1.3 1 787 48 121 683 1.3 1 622 61 122 490 1.3 1 447 43 123 327 1.3 1 284 43 124 307 1.3 1 276 31 125 234 1.3 1 195 39 126 194 1.3 1 165 29 127 166 1.3 1 138 28 128 143 1.3 1 115 28 129 96 1.3 1 83 13 130 119 1.3 1 89 30 131 80 1.3 1 64 16 132 76 1.3 1 55 21 133 78 1.3 1 62 16 134 55 1.3 1 37 18 135 66 1.3 1 60 6 136 61 1.3 1 49 12 137 52 1.3 1 38 14 138 52 1.3 1 32 20 139 39 1.3 1 31 8 140 34 1.3 1 30 4 141 42 1.3 1 22 20 142 40 1.3 1 14 26 143 27 1.3 1 18 9 144 35 1.3 1 10 25 145 51 1.3 1 22 29 146 26 1.3 1 9 17 147 31 1.3 1 11 20 148 37 1.3 1 20 17 149 30 1.3 1 11 19 150 62 1.3 1 16 46 151 6860 1.3 1 20 6840 RUN STATISTICS FOR INPUT FILE: ERR12308524_1.fastq.gz ============================================= 88207556 sequences processed in total