SUMMARISING RUN PARAMETERS ========================== Input filename: ERR10684016_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: 86967). 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 ERR10684016_1.fastq.gz Processing single-end reads on 2 cores ... Finished in 1816.207 s (18.445 µs/read; 3.25 M reads/minute). === Summary === Total reads processed: 98,465,942 Reads with adapters: 54,855,653 (55.7%) Reads written (passing filters): 98,465,942 (100.0%) Total basepairs processed: 14,868,357,242 bp Quality-trimmed: 63,652,381 bp (0.4%) Total written (filtered): 14,364,422,285 bp (96.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 54855653 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 50.8% C: 17.8% G: 0.8% T: 30.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 43077726 24616485.5 0 43077726 2 518027 6154121.4 0 518027 3 306627 1538530.3 0 306627 4 237979 384632.6 0 237979 5 244088 96158.1 0 244088 6 218916 24039.5 0 218916 7 216553 6009.9 0 216553 8 261171 1502.5 0 261171 9 165048 375.6 0 164406 642 10 230885 93.9 1 211503 19382 11 194228 23.5 1 175673 18555 12 224107 5.9 1 194799 29308 13 208262 1.5 1 182122 26140 14 253094 1.5 1 220204 32890 15 166589 1.5 1 145087 21502 16 197602 1.5 1 172941 24661 17 267957 1.5 1 235838 32119 18 120553 1.5 1 104634 15919 19 268673 1.5 1 235518 33155 20 192930 1.5 1 170221 22709 21 113942 1.5 1 99438 14504 22 185105 1.5 1 162443 22662 23 185877 1.5 1 163379 22498 24 244247 1.5 1 214862 29385 25 207030 1.5 1 183943 23087 26 155713 1.5 1 137440 18273 27 118103 1.5 1 103353 14750 28 204697 1.5 1 183447 21250 29 124928 1.5 1 110120 14808 30 201799 1.5 1 180849 20950 31 124245 1.5 1 109847 14398 32 196531 1.5 1 176348 20183 33 115121 1.5 1 102176 12945 34 186932 1.5 1 165623 21309 35 165387 1.5 1 150353 15034 36 101142 1.5 1 90210 10932 37 158259 1.5 1 142426 15833 38 142687 1.5 1 128457 14230 39 141330 1.5 1 127466 13864 40 122551 1.5 1 109614 12937 41 136333 1.5 1 122760 13573 42 141539 1.5 1 128046 13493 43 116350 1.5 1 104993 11357 44 123211 1.5 1 111695 11516 45 134512 1.5 1 121142 13370 46 125760 1.5 1 113789 11971 47 117564 1.5 1 107369 10195 48 105205 1.5 1 95491 9714 49 115677 1.5 1 104615 11062 50 105816 1.5 1 97123 8693 51 98985 1.5 1 90401 8584 52 103907 1.5 1 95093 8814 53 101121 1.5 1 92426 8695 54 120442 1.5 1 110540 9902 55 73853 1.5 1 67350 6503 56 97810 1.5 1 89223 8587 57 136732 1.5 1 125637 11095 58 61894 1.5 1 56146 5748 59 70275 1.5 1 64593 5682 60 100599 1.5 1 92252 8347 61 86958 1.5 1 80174 6784 62 62582 1.5 1 57346 5236 63 153743 1.5 1 143012 10731 64 60501 1.5 1 55534 4967 65 50523 1.5 1 46496 4027 66 46127 1.5 1 42500 3627 67 80060 1.5 1 74682 5378 68 69100 1.5 1 63914 5186 69 61723 1.5 1 57277 4446 70 69444 1.5 1 64635 4809 71 65389 1.5 1 60855 4534 72 64877 1.5 1 60221 4656 73 83566 1.5 1 77993 5573 74 51901 1.5 1 48220 3681 75 50881 1.5 1 47614 3267 76 37079 1.5 1 34615 2464 77 36448 1.5 1 33912 2536 78 37751 1.5 1 35226 2525 79 37107 1.5 1 34694 2413 80 36902 1.5 1 34462 2440 81 35861 1.5 1 33540 2321 82 35143 1.5 1 32823 2320 83 35443 1.5 1 33220 2223 84 33979 1.5 1 31791 2188 85 33040 1.5 1 31089 1951 86 30881 1.5 1 28970 1911 87 28796 1.5 1 27026 1770 88 27479 1.5 1 25802 1677 89 26677 1.5 1 25087 1590 90 26061 1.5 1 24549 1512 91 23979 1.5 1 22489 1490 92 23414 1.5 1 22118 1296 93 22487 1.5 1 21122 1365 94 20840 1.5 1 19597 1243 95 19739 1.5 1 18664 1075 96 19155 1.5 1 18024 1131 97 18138 1.5 1 17150 988 98 17435 1.5 1 16427 1008 99 17170 1.5 1 16263 907 100 16218 1.5 1 15324 894 101 14056 1.5 1 13241 815 102 12971 1.5 1 12276 695 103 12038 1.5 1 11459 579 104 10831 1.5 1 10229 602 105 10191 1.5 1 9693 498 106 9390 1.5 1 8918 472 107 8793 1.5 1 8325 468 108 7956 1.5 1 7558 398 109 7039 1.5 1 6679 360 110 6279 1.5 1 5980 299 111 5742 1.5 1 5438 304 112 5036 1.5 1 4794 242 113 4421 1.5 1 4216 205 114 3778 1.5 1 3594 184 115 3152 1.5 1 3018 134 116 2821 1.5 1 2716 105 117 2432 1.5 1 2327 105 118 2063 1.5 1 1978 85 119 1818 1.5 1 1724 94 120 7665 1.5 1 7320 345 121 1574 1.5 1 1509 65 122 975 1.5 1 922 53 123 817 1.5 1 779 38 124 600 1.5 1 573 27 125 477 1.5 1 457 20 126 450 1.5 1 432 18 127 345 1.5 1 323 22 128 226 1.5 1 210 16 129 275 1.5 1 254 21 130 189 1.5 1 170 19 131 235 1.5 1 223 12 132 156 1.5 1 136 20 133 157 1.5 1 147 10 134 144 1.5 1 136 8 135 157 1.5 1 142 15 136 124 1.5 1 114 10 137 173 1.5 1 167 6 138 105 1.5 1 93 12 139 142 1.5 1 127 15 140 82 1.5 1 62 20 141 119 1.5 1 111 8 142 75 1.5 1 64 11 143 83 1.5 1 77 6 144 73 1.5 1 53 20 145 86 1.5 1 64 22 146 60 1.5 1 50 10 147 64 1.5 1 44 20 148 61 1.5 1 42 19 149 81 1.5 1 56 25 150 41 1.5 1 17 24 151 212 1.5 1 147 65 RUN STATISTICS FOR INPUT FILE: ERR10684016_1.fastq.gz ============================================= 98465942 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 98465942 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 89598 (0.09%)