SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913501_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: 80631). 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 ERR13913501_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 1280.326 s (17.268 µs/read; 3.47 M reads/minute). === Summary === Total reads processed: 74,143,100 Reads with adapters: 41,431,731 (55.9%) Reads written (passing filters): 74,143,100 (100.0%) Total basepairs processed: 11,121,465,000 bp Quality-trimmed: 38,420,041 bp (0.3%) Total written (filtered): 10,807,992,258 bp (97.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 41431731 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.4% C: 17.9% G: 0.4% T: 29.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 33172365 18535775.0 0 33172365 2 243403 4633943.8 0 243403 3 211966 1158485.9 0 211966 4 197327 289621.5 0 197327 5 187996 72405.4 0 187996 6 168207 18101.3 0 168207 7 178188 4525.3 0 178188 8 193413 1131.3 0 193413 9 150313 282.8 0 150250 63 10 175516 70.7 1 155655 19861 11 177260 17.7 1 155077 22183 12 171223 4.4 1 110692 60531 13 163081 1.1 1 102323 60758 14 174555 1.1 1 110263 64292 15 155640 1.1 1 98534 57106 16 161637 1.1 1 102236 59401 17 180538 1.1 1 115159 65379 18 138465 1.1 1 88718 49747 19 165953 1.1 1 106878 59075 20 161655 1.1 1 103592 58063 21 145267 1.1 1 93374 51893 22 149233 1.1 1 96116 53117 23 146439 1.1 1 94961 51478 24 255509 1.1 1 169604 85905 25 173212 1.1 1 111517 61695 26 74003 1.1 1 48694 25309 27 78967 1.1 1 51852 27115 28 163306 1.1 1 109843 53463 29 106321 1.1 1 69941 36380 30 160174 1.1 1 108276 51898 31 103183 1.1 1 68845 34338 32 166445 1.1 1 112930 53515 33 115396 1.1 1 77370 38026 34 102671 1.1 1 69860 32811 35 116172 1.1 1 79719 36453 36 115519 1.1 1 78996 36523 37 107747 1.1 1 74536 33211 38 113971 1.1 1 79324 34647 39 107029 1.1 1 74437 32592 40 106480 1.1 1 74231 32249 41 133994 1.1 1 94055 39939 42 88890 1.1 1 61270 27620 43 81199 1.1 1 57550 23649 44 98129 1.1 1 69526 28603 45 88355 1.1 1 62799 25556 46 90272 1.1 1 64453 25819 47 90178 1.1 1 64085 26093 48 86597 1.1 1 61936 24661 49 80785 1.1 1 58317 22468 50 79069 1.1 1 56730 22339 51 77134 1.1 1 55894 21240 52 71691 1.1 1 52254 19437 53 70685 1.1 1 51819 18866 54 68279 1.1 1 50096 18183 55 64075 1.1 1 47249 16826 56 65832 1.1 1 48625 17207 57 58352 1.1 1 43251 15101 58 58767 1.1 1 43601 15166 59 63115 1.1 1 47089 16026 60 49565 1.1 1 36852 12713 61 50733 1.1 1 38278 12455 62 53358 1.1 1 40376 12982 63 44999 1.1 1 33763 11236 64 41139 1.1 1 31208 9931 65 71110 1.1 1 54743 16367 66 30245 1.1 1 22685 7560 67 27639 1.1 1 21040 6599 68 28705 1.1 1 22012 6693 69 37551 1.1 1 29346 8205 70 34882 1.1 1 26790 8092 71 27729 1.1 1 21546 6183 72 28435 1.1 1 22193 6242 73 25981 1.1 1 20132 5849 74 24744 1.1 1 19292 5452 75 30732 1.1 1 24188 6544 76 22133 1.1 1 17407 4726 77 17474 1.1 1 14011 3463 78 5123 1.1 1 4071 1052 79 10557 1.1 1 8387 2170 80 12694 1.1 1 10180 2514 81 11845 1.1 1 9463 2382 82 10708 1.1 1 8602 2106 83 9738 1.1 1 7807 1931 84 8799 1.1 1 7056 1743 85 8076 1.1 1 6504 1572 86 6963 1.1 1 5663 1300 87 6310 1.1 1 5125 1185 88 5616 1.1 1 4594 1022 89 4687 1.1 1 3779 908 90 4206 1.1 1 3462 744 91 3664 1.1 1 3033 631 92 3053 1.1 1 2475 578 93 2595 1.1 1 2094 501 94 2271 1.1 1 1860 411 95 1971 1.1 1 1587 384 96 1732 1.1 1 1413 319 97 1397 1.1 1 1141 256 98 1160 1.1 1 915 245 99 1047 1.1 1 845 202 100 885 1.1 1 734 151 101 703 1.1 1 569 134 102 603 1.1 1 461 142 103 530 1.1 1 396 134 104 436 1.1 1 330 106 105 356 1.1 1 267 89 106 327 1.1 1 255 72 107 302 1.1 1 228 74 108 262 1.1 1 177 85 109 232 1.1 1 164 68 110 198 1.1 1 135 63 111 200 1.1 1 144 56 112 170 1.1 1 97 73 113 178 1.1 1 118 60 114 153 1.1 1 109 44 115 142 1.1 1 103 39 116 154 1.1 1 97 57 117 139 1.1 1 87 52 118 153 1.1 1 112 41 119 172 1.1 1 121 51 120 149 1.1 1 103 46 121 145 1.1 1 115 30 122 168 1.1 1 114 54 123 166 1.1 1 122 44 124 144 1.1 1 108 36 125 151 1.1 1 115 36 126 129 1.1 1 95 34 127 139 1.1 1 104 35 128 129 1.1 1 99 30 129 106 1.1 1 83 23 130 153 1.1 1 109 44 131 105 1.1 1 88 17 132 115 1.1 1 98 17 133 75 1.1 1 52 23 134 86 1.1 1 65 21 135 59 1.1 1 42 17 136 96 1.1 1 77 19 137 67 1.1 1 56 11 138 64 1.1 1 47 17 139 60 1.1 1 43 17 140 75 1.1 1 60 15 141 39 1.1 1 36 3 142 48 1.1 1 27 21 143 49 1.1 1 36 13 144 59 1.1 1 35 24 145 74 1.1 1 45 29 146 66 1.1 1 44 22 147 47 1.1 1 27 20 148 50 1.1 1 32 18 149 59 1.1 1 33 26 150 55 1.1 1 24 31 RUN STATISTICS FOR INPUT FILE: ERR13913501_2.fastq.gz ============================================= 74143100 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 74143100 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 9752 (0.01%)