SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913499_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: 27813). 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 ERR13913499_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2280.191 s (21.727 µs/read; 2.76 M reads/minute). === Summary === Total reads processed: 104,947,850 Reads with adapters: 54,766,223 (52.2%) Reads written (passing filters): 104,947,850 (100.0%) Total basepairs processed: 15,742,177,500 bp Quality-trimmed: 59,284,731 bp (0.4%) Total written (filtered): 15,526,087,102 bp (98.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 54766223 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.9% C: 17.3% G: 0.3% T: 29.4% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 50963964 26236962.5 0 50963964 2 139508 6559240.6 0 139508 3 133019 1639810.2 0 133019 4 105143 409952.5 0 105143 5 97580 102488.1 0 97580 6 85636 25622.0 0 85636 7 89309 6405.5 0 89309 8 95204 1601.4 0 95204 9 75930 400.3 0 75902 28 10 87011 100.1 1 81469 5542 11 85428 25.0 1 78949 6479 12 83817 6.3 1 60377 23440 13 79036 1.6 1 55803 23233 14 85393 1.6 1 60552 24841 15 72258 1.6 1 51343 20915 16 74765 1.6 1 53366 21399 17 93712 1.6 1 67238 26474 18 56523 1.6 1 40745 15778 19 92664 1.6 1 67364 25300 20 65730 1.6 1 46980 18750 21 57595 1.6 1 41400 16195 22 67425 1.6 1 48941 18484 23 65481 1.6 1 47471 18010 24 78668 1.6 1 57306 21362 25 74651 1.6 1 53995 20656 26 48982 1.6 1 35761 13221 27 56505 1.6 1 40984 15521 28 62187 1.6 1 46157 16030 29 58499 1.6 1 43216 15283 30 60102 1.6 1 44919 15183 31 57761 1.6 1 42815 14946 32 56848 1.6 1 42285 14563 33 56487 1.6 1 41955 14532 34 51114 1.6 1 38188 12926 35 48328 1.6 1 36590 11738 36 52194 1.6 1 39135 13059 37 47639 1.6 1 35628 12011 38 48583 1.6 1 36921 11662 39 43916 1.6 1 33141 10775 40 46259 1.6 1 35175 11084 41 42751 1.6 1 32495 10256 42 42957 1.6 1 33122 9835 43 38766 1.6 1 29598 9168 44 40345 1.6 1 31040 9305 45 37019 1.6 1 28237 8782 46 36570 1.6 1 28290 8280 47 36608 1.6 1 28085 8523 48 36722 1.6 1 28338 8384 49 32644 1.6 1 25473 7171 50 32430 1.6 1 25232 7198 51 33274 1.6 1 25873 7401 52 29783 1.6 1 23380 6403 53 29389 1.6 1 22974 6415 54 27875 1.6 1 21778 6097 55 26041 1.6 1 20524 5517 56 26896 1.6 1 21224 5672 57 23995 1.6 1 18967 5028 58 24448 1.6 1 19351 5097 59 29882 1.6 1 23938 5944 60 18305 1.6 1 14459 3846 61 20895 1.6 1 16676 4219 62 22753 1.6 1 18454 4299 63 19069 1.6 1 15295 3774 64 17525 1.6 1 14077 3448 65 30971 1.6 1 25417 5554 66 13120 1.6 1 10537 2583 67 11523 1.6 1 9222 2301 68 12053 1.6 1 9785 2268 69 16020 1.6 1 13176 2844 70 14973 1.6 1 12186 2787 71 12112 1.6 1 9806 2306 72 12800 1.6 1 10537 2263 73 11728 1.6 1 9610 2118 74 10858 1.6 1 8870 1988 75 13504 1.6 1 11098 2406 76 9605 1.6 1 7964 1641 77 7412 1.6 1 6034 1378 78 2385 1.6 1 1966 419 79 4692 1.6 1 3895 797 80 5494 1.6 1 4565 929 81 5389 1.6 1 4524 865 82 5120 1.6 1 4282 838 83 4420 1.6 1 3734 686 84 3997 1.6 1 3347 650 85 3612 1.6 1 3029 583 86 3143 1.6 1 2609 534 87 2912 1.6 1 2437 475 88 2459 1.6 1 2051 408 89 2230 1.6 1 1877 353 90 1834 1.6 1 1500 334 91 1718 1.6 1 1423 295 92 1416 1.6 1 1175 241 93 1135 1.6 1 938 197 94 1108 1.6 1 877 231 95 915 1.6 1 714 201 96 726 1.6 1 563 163 97 664 1.6 1 501 163 98 529 1.6 1 400 129 99 504 1.6 1 385 119 100 409 1.6 1 301 108 101 366 1.6 1 257 109 102 359 1.6 1 262 97 103 282 1.6 1 198 84 104 242 1.6 1 157 85 105 232 1.6 1 146 86 106 216 1.6 1 137 79 107 198 1.6 1 135 63 108 194 1.6 1 108 86 109 163 1.6 1 100 63 110 152 1.6 1 95 57 111 161 1.6 1 106 55 112 165 1.6 1 79 86 113 119 1.6 1 64 55 114 134 1.6 1 74 60 115 109 1.6 1 57 52 116 128 1.6 1 86 42 117 114 1.6 1 64 50 118 132 1.6 1 83 49 119 121 1.6 1 77 44 120 104 1.6 1 70 34 121 107 1.6 1 62 45 122 115 1.6 1 77 38 123 101 1.6 1 58 43 124 89 1.6 1 54 35 125 84 1.6 1 53 31 126 76 1.6 1 41 35 127 57 1.6 1 41 16 128 71 1.6 1 42 29 129 68 1.6 1 49 19 130 47 1.6 1 33 14 131 55 1.6 1 36 19 132 35 1.6 1 25 10 133 36 1.6 1 26 10 134 23 1.6 1 13 10 135 25 1.6 1 18 7 136 25 1.6 1 22 3 137 27 1.6 1 20 7 138 26 1.6 1 20 6 139 23 1.6 1 12 11 140 13 1.6 1 11 2 141 10 1.6 1 6 4 142 12 1.6 1 7 5 143 15 1.6 1 6 9 144 15 1.6 1 10 5 145 22 1.6 1 13 9 146 17 1.6 1 10 7 147 8 1.6 1 5 3 148 16 1.6 1 9 7 149 10 1.6 1 5 5 150 18 1.6 1 7 11 RUN STATISTICS FOR INPUT FILE: ERR13913499_2.fastq.gz ============================================= 104947850 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 104947850 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 19136 (0.02%)