SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245589_1.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Number of cores used for trimming: 1 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 5835). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245589_1.fastq.gz Processing single-end reads on 1 core ... Finished in 4129.996 s (52.481 µs/read; 1.14 M reads/minute). === Summary === Total reads processed: 78,694,915 Reads with adapters: 30,516,698 (38.8%) Reads written (passing filters): 78,694,915 (100.0%) Total basepairs processed: 11,804,237,250 bp Quality-trimmed: 10,598,120 bp (0.1%) Total written (filtered): 11,715,400,977 bp (99.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 30516698 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.1% C: 1.6% G: 12.7% T: 48.4% none/other: 0.3% Overview of removed sequences length count expect max.err error counts 1 24495711 19673728.8 0 24495711 2 3496789 4918432.2 0 3496789 3 1362899 1229608.0 0 1362899 4 596242 307402.0 0 596242 5 12874 76850.5 0 12874 6 11414 19212.6 0 11414 7 10152 4803.2 0 10152 8 10255 1200.8 0 10255 9 11438 300.2 0 10712 726 10 9990 75.0 1 8548 1442 11 10534 18.8 1 9582 952 12 9191 4.7 1 8744 447 13 7688 1.2 1 7368 320 14 9106 1.2 1 8464 642 15 7667 1.2 1 7332 335 16 8603 1.2 1 7913 690 17 8080 1.2 1 7598 482 18 7212 1.2 1 6904 308 19 6799 1.2 1 6435 364 20 6725 1.2 1 6459 266 21 6900 1.2 1 6503 397 22 6074 1.2 1 5821 253 23 6317 1.2 1 5997 320 24 6838 1.2 1 6263 575 25 5492 1.2 1 5263 229 26 5398 1.2 1 5133 265 27 5414 1.2 1 5160 254 28 4954 1.2 1 4733 221 29 5550 1.2 1 5160 390 30 4728 1.2 1 4524 204 31 4569 1.2 1 4346 223 32 4477 1.2 1 4323 154 33 4696 1.2 1 4381 315 34 4529 1.2 1 4336 193 35 4114 1.2 1 3910 204 36 3894 1.2 1 3740 154 37 3965 1.2 1 3758 207 38 3745 1.2 1 3591 154 39 3859 1.2 1 3682 177 40 4053 1.2 1 3753 300 41 3544 1.2 1 3382 162 42 3253 1.2 1 3140 113 43 4025 1.2 1 3709 316 44 3465 1.2 1 3258 207 45 4924 1.2 1 4771 153 46 1497 1.2 1 1398 99 47 2523 1.2 1 2459 64 48 3685 1.2 1 3540 145 49 2870 1.2 1 2774 96 50 2776 1.2 1 2612 164 51 4870 1.2 1 4613 257 52 2211 1.2 1 2124 87 53 1456 1.2 1 1403 53 54 2790 1.2 1 2668 122 55 3358 1.2 1 3278 80 56 2952 1.2 1 2848 104 57 2221 1.2 1 2157 64 58 1720 1.2 1 1660 60 59 3849 1.2 1 3725 124 60 960 1.2 1 928 32 61 1385 1.2 1 1322 63 62 2651 1.2 1 2569 82 63 1769 1.2 1 1722 47 64 1142 1.2 1 1103 39 65 2069 1.2 1 1998 71 66 2190 1.2 1 2126 64 67 1463 1.2 1 1402 61 68 2355 1.2 1 2275 80 69 2675 1.2 1 2577 98 70 4694 1.2 1 4552 142 71 392 1.2 1 349 43 72 146 1.2 1 122 24 73 606 1.2 1 583 23 74 1179 1.2 1 1143 36 75 1525 1.2 1 1483 42 76 1616 1.2 1 1572 44 77 1659 1.2 1 1590 69 78 1687 1.2 1 1629 58 79 1762 1.2 1 1704 58 80 1727 1.2 1 1660 67 81 1673 1.2 1 1607 66 82 1614 1.2 1 1558 56 83 1619 1.2 1 1570 49 84 1607 1.2 1 1556 51 85 1601 1.2 1 1545 56 86 1575 1.2 1 1527 48 87 1565 1.2 1 1501 64 88 1572 1.2 1 1519 53 89 1556 1.2 1 1510 46 90 1447 1.2 1 1401 46 91 1510 1.2 1 1457 53 92 1441 1.2 1 1405 36 93 1450 1.2 1 1392 58 94 1507 1.2 1 1467 40 95 1437 1.2 1 1395 42 96 1426 1.2 1 1374 52 97 1413 1.2 1 1383 30 98 1356 1.2 1 1315 41 99 1396 1.2 1 1365 31 100 1422 1.2 1 1377 45 101 1381 1.2 1 1339 42 102 1360 1.2 1 1326 34 103 1375 1.2 1 1335 40 104 1341 1.2 1 1311 30 105 1311 1.2 1 1277 34 106 1279 1.2 1 1244 35 107 1275 1.2 1 1230 45 108 1240 1.2 1 1206 34 109 1176 1.2 1 1147 29 110 1152 1.2 1 1118 34 111 1194 1.2 1 1175 19 112 1133 1.2 1 1104 29 113 1108 1.2 1 1085 23 114 1105 1.2 1 1071 34 115 1127 1.2 1 1103 24 116 1070 1.2 1 1054 16 117 1125 1.2 1 1090 35 118 1163 1.2 1 1135 28 119 1192 1.2 1 1160 32 120 1200 1.2 1 1176 24 121 1270 1.2 1 1244 26 122 1156 1.2 1 1137 19 123 1205 1.2 1 1191 14 124 1190 1.2 1 1171 19 125 1060 1.2 1 1042 18 126 995 1.2 1 981 14 127 882 1.2 1 870 12 128 774 1.2 1 756 18 129 699 1.2 1 683 16 130 641 1.2 1 630 11 131 637 1.2 1 625 12 132 690 1.2 1 681 9 133 654 1.2 1 641 13 134 671 1.2 1 655 16 135 625 1.2 1 616 9 136 599 1.2 1 584 15 137 671 1.2 1 659 12 138 856 1.2 1 837 19 139 997 1.2 1 981 16 140 1361 1.2 1 1338 23 141 2075 1.2 1 2053 22 142 2420 1.2 1 2397 23 143 3431 1.2 1 3385 46 144 4910 1.2 1 4847 63 145 9163 1.2 1 9065 98 146 5487 1.2 1 5426 61 147 1460 1.2 1 1423 37 148 25507 1.2 1 25198 309 149 9057 1.2 1 8852 205 150 88485 1.2 1 86574 1911 RUN STATISTICS FOR INPUT FILE: SRR18245589_1.fastq.gz ============================================= 78694915 sequences processed in total