SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245599_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: 40595). 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 1 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR18245599_1.fastq.gz Processing single-end reads on 1 core ... Finished in 3731.885 s (45.111 µs/read; 1.33 M reads/minute). === Summary === Total reads processed: 82,727,298 Reads with adapters: 33,643,563 (40.7%) Reads written (passing filters): 82,727,298 (100.0%) Total basepairs processed: 12,409,094,700 bp Quality-trimmed: 10,987,253 bp (0.1%) Total written (filtered): 12,182,128,546 bp (98.2%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 33643563 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 30.1% C: 13.6% G: 12.8% T: 43.3% none/other: 0.2% Overview of removed sequences length count expect max.err error counts 1 22976093 20681824.5 0 22976093 2 3815284 5170456.1 0 3815284 3 1477739 1292614.0 0 1477739 4 732742 323153.5 0 732742 5 152828 80788.4 0 152828 6 137222 20197.1 0 137222 7 131039 5049.3 0 131039 8 137811 1262.3 0 137811 9 129135 315.6 0 128454 681 10 123269 78.9 1 117522 5747 11 131331 19.7 1 122500 8831 12 125083 4.9 1 118671 6412 13 105006 1.2 1 100012 4994 14 114400 1.2 1 106629 7771 15 104661 1.2 1 98996 5665 16 108822 1.2 1 100735 8087 17 104335 1.2 1 97168 7167 18 95737 1.2 1 90847 4890 19 87205 1.2 1 82572 4633 20 88957 1.2 1 83977 4980 21 86538 1.2 1 81353 5185 22 80083 1.2 1 76359 3724 23 82459 1.2 1 77441 5018 24 79629 1.2 1 74000 5629 25 72919 1.2 1 69079 3840 26 70779 1.2 1 67022 3757 27 69707 1.2 1 65829 3878 28 63528 1.2 1 60483 3045 29 66193 1.2 1 61945 4248 30 61551 1.2 1 58567 2984 31 56653 1.2 1 53892 2761 32 55729 1.2 1 53160 2569 33 55198 1.2 1 51839 3359 34 51579 1.2 1 49265 2314 35 55659 1.2 1 51991 3668 36 47990 1.2 1 45600 2390 37 45922 1.2 1 43606 2316 38 42852 1.2 1 41074 1778 39 45152 1.2 1 42361 2791 40 39605 1.2 1 38080 1525 41 43944 1.2 1 41712 2232 42 37729 1.2 1 35676 2053 43 41281 1.2 1 37991 3290 44 38119 1.2 1 35718 2401 45 51021 1.2 1 48859 2162 46 21590 1.2 1 20200 1390 47 28076 1.2 1 26849 1227 48 34040 1.2 1 32524 1516 49 28557 1.2 1 27209 1348 50 30087 1.2 1 28362 1725 51 33853 1.2 1 31733 2120 52 25387 1.2 1 24313 1074 53 24512 1.2 1 23518 994 54 27483 1.2 1 26140 1343 55 27323 1.2 1 26205 1118 56 23349 1.2 1 22247 1102 57 26936 1.2 1 25865 1071 58 22432 1.2 1 21435 997 59 24443 1.2 1 23250 1193 60 20623 1.2 1 19947 676 61 16783 1.2 1 16019 764 62 22458 1.2 1 21599 859 63 23433 1.2 1 22664 769 64 15906 1.2 1 15301 605 65 16990 1.2 1 16203 787 66 23930 1.2 1 23229 701 67 18714 1.2 1 17961 753 68 26708 1.2 1 25731 977 69 22723 1.2 1 21674 1049 70 34442 1.2 1 32937 1505 71 2131 1.2 1 1879 252 72 1746 1.2 1 1610 136 73 6701 1.2 1 6483 218 74 10837 1.2 1 10493 344 75 13089 1.2 1 12624 465 76 13530 1.2 1 13087 443 77 13530 1.2 1 13062 468 78 13432 1.2 1 12911 521 79 13412 1.2 1 12911 501 80 12817 1.2 1 12375 442 81 12963 1.2 1 12489 474 82 12408 1.2 1 11922 486 83 12195 1.2 1 11729 466 84 11907 1.2 1 11473 434 85 11889 1.2 1 11421 468 86 11867 1.2 1 11408 459 87 11294 1.2 1 10858 436 88 11150 1.2 1 10741 409 89 11128 1.2 1 10681 447 90 10783 1.2 1 10397 386 91 10644 1.2 1 10180 464 92 10599 1.2 1 10168 431 93 10310 1.2 1 9926 384 94 10141 1.2 1 9743 398 95 9931 1.2 1 9541 390 96 9882 1.2 1 9461 421 97 9887 1.2 1 9455 432 98 9613 1.2 1 9189 424 99 9617 1.2 1 9185 432 100 9219 1.2 1 8856 363 101 9299 1.2 1 8912 387 102 9066 1.2 1 8729 337 103 9068 1.2 1 8704 364 104 8862 1.2 1 8514 348 105 8765 1.2 1 8433 332 106 8787 1.2 1 8445 342 107 8633 1.2 1 8260 373 108 8598 1.2 1 8308 290 109 8328 1.2 1 8011 317 110 8365 1.2 1 8039 326 111 8608 1.2 1 8309 299 112 8270 1.2 1 7997 273 113 8417 1.2 1 8175 242 114 8087 1.2 1 7812 275 115 8092 1.2 1 7814 278 116 8339 1.2 1 8082 257 117 8569 1.2 1 8299 270 118 9049 1.2 1 8777 272 119 9684 1.2 1 9430 254 120 10314 1.2 1 10054 260 121 10897 1.2 1 10617 280 122 10698 1.2 1 10427 271 123 10548 1.2 1 10299 249 124 10174 1.2 1 9949 225 125 9091 1.2 1 8826 265 126 7925 1.2 1 7764 161 127 7250 1.2 1 7088 162 128 6653 1.2 1 6523 130 129 5645 1.2 1 5539 106 130 5148 1.2 1 5045 103 131 5005 1.2 1 4898 107 132 4588 1.2 1 4494 94 133 4490 1.2 1 4389 101 134 3923 1.2 1 3821 102 135 3500 1.2 1 3390 110 136 3033 1.2 1 2958 75 137 2811 1.2 1 2746 65 138 3123 1.2 1 3061 62 139 2854 1.2 1 2792 62 140 2892 1.2 1 2846 46 141 3429 1.2 1 3362 67 142 2822 1.2 1 2762 60 143 3006 1.2 1 2920 86 144 3967 1.2 1 3795 172 145 5247 1.2 1 4917 330 146 2774 1.2 1 2575 199 147 294 1.2 1 224 70 148 5440 1.2 1 3414 2026 149 2063 1.2 1 1680 383 150 59125 1.2 1 49944 9181 RUN STATISTICS FOR INPUT FILE: SRR18245599_1.fastq.gz ============================================= 82727298 sequences processed in total