SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913476_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: 23311). 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 ERR13913476_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 3346.387 s (22.097 µs/read; 2.72 M reads/minute). === Summary === Total reads processed: 151,439,032 Reads with adapters: 78,251,484 (51.7%) Reads written (passing filters): 151,439,032 (100.0%) Total basepairs processed: 22,715,854,800 bp Quality-trimmed: 100,158,678 bp (0.4%) Total written (filtered): 22,411,088,518 bp (98.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 78251484 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.5% C: 17.2% G: 0.4% T: 29.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 73320734 37859758.0 0 73320734 2 224792 9464939.5 0 224792 3 205695 2366234.9 0 205695 4 151263 591558.7 0 151263 5 137168 147889.7 0 137168 6 106649 36972.4 0 106649 7 116005 9243.1 0 116005 8 119558 2310.8 0 119558 9 100142 577.7 0 100118 24 10 114621 144.4 1 105527 9094 11 114055 36.1 1 102780 11275 12 107916 9.0 1 75486 32430 13 102258 2.3 1 70177 32081 14 112654 2.3 1 78293 34361 15 91866 2.3 1 63554 28312 16 99209 2.3 1 68341 30868 17 123891 2.3 1 86647 37244 18 68928 2.3 1 47918 21010 19 121414 2.3 1 86129 35285 20 89865 2.3 1 62109 27756 21 71367 2.3 1 49729 21638 22 86941 2.3 1 61416 25525 23 84747 2.3 1 59851 24896 24 112458 2.3 1 80893 31565 25 107856 2.3 1 76428 31428 26 58050 2.3 1 41211 16839 27 58826 2.3 1 41520 17306 28 88532 2.3 1 64800 23732 29 65068 2.3 1 46182 18886 30 83195 2.3 1 60760 22435 31 66885 2.3 1 48442 18443 32 86431 2.3 1 63921 22510 33 68096 2.3 1 49557 18539 34 82625 2.3 1 61302 21323 35 48471 2.3 1 34955 13516 36 68999 2.3 1 50725 18274 37 48942 2.3 1 35577 13365 38 57682 2.3 1 42891 14791 39 55682 2.3 1 41311 14371 40 60393 2.3 1 45211 15182 41 65514 2.3 1 49516 15998 42 38974 2.3 1 28633 10341 43 51047 2.3 1 38275 12772 44 54560 2.3 1 41221 13339 45 43504 2.3 1 32464 11040 46 47845 2.3 1 36161 11684 47 46490 2.3 1 34960 11530 48 44760 2.3 1 34037 10723 49 41954 2.3 1 32247 9707 50 38988 2.3 1 29594 9394 51 40328 2.3 1 30835 9493 52 36622 2.3 1 28205 8417 53 36073 2.3 1 27745 8328 54 34731 2.3 1 26626 8105 55 32523 2.3 1 25272 7251 56 34933 2.3 1 27286 7647 57 27193 2.3 1 21026 6167 58 29755 2.3 1 23073 6682 59 36536 2.3 1 28925 7611 60 21305 2.3 1 16541 4764 61 24512 2.3 1 19071 5441 62 27204 2.3 1 21534 5670 63 21773 2.3 1 16928 4845 64 19882 2.3 1 15600 4282 65 38017 2.3 1 30600 7417 66 14885 2.3 1 11470 3415 67 12905 2.3 1 10180 2725 68 13130 2.3 1 10426 2704 69 18367 2.3 1 14790 3577 70 17009 2.3 1 13368 3641 71 12802 2.3 1 10345 2457 72 14188 2.3 1 11397 2791 73 13068 2.3 1 10385 2683 74 11661 2.3 1 9306 2355 75 16322 2.3 1 12953 3369 76 9164 2.3 1 7313 1851 77 6603 2.3 1 5240 1363 78 2911 2.3 1 2356 555 79 4469 2.3 1 3632 837 80 5340 2.3 1 4412 928 81 4985 2.3 1 4088 897 82 4663 2.3 1 3716 947 83 4267 2.3 1 3400 867 84 3925 2.3 1 3108 817 85 3484 2.3 1 2704 780 86 3235 2.3 1 2520 715 87 2790 2.3 1 2210 580 88 2528 2.3 1 1956 572 89 2193 2.3 1 1706 487 90 1949 2.3 1 1475 474 91 1682 2.3 1 1243 439 92 1420 2.3 1 1043 377 93 1303 2.3 1 931 372 94 1217 2.3 1 845 372 95 1024 2.3 1 710 314 96 899 2.3 1 608 291 97 796 2.3 1 542 254 98 731 2.3 1 496 235 99 681 2.3 1 422 259 100 690 2.3 1 432 258 101 558 2.3 1 331 227 102 564 2.3 1 309 255 103 461 2.3 1 248 213 104 462 2.3 1 257 205 105 374 2.3 1 211 163 106 390 2.3 1 222 168 107 366 2.3 1 194 172 108 382 2.3 1 196 186 109 310 2.3 1 173 137 110 321 2.3 1 168 153 111 311 2.3 1 164 147 112 297 2.3 1 152 145 113 295 2.3 1 163 132 114 272 2.3 1 155 117 115 234 2.3 1 121 113 116 268 2.3 1 129 139 117 221 2.3 1 110 111 118 256 2.3 1 138 118 119 286 2.3 1 154 132 120 243 2.3 1 122 121 121 209 2.3 1 124 85 122 210 2.3 1 139 71 123 214 2.3 1 116 98 124 203 2.3 1 120 83 125 158 2.3 1 91 67 126 182 2.3 1 109 73 127 146 2.3 1 83 63 128 137 2.3 1 83 54 129 122 2.3 1 66 56 130 104 2.3 1 67 37 131 95 2.3 1 61 34 132 83 2.3 1 57 26 133 78 2.3 1 58 20 134 77 2.3 1 58 19 135 61 2.3 1 39 22 136 56 2.3 1 35 21 137 28 2.3 1 16 12 138 27 2.3 1 18 9 139 23 2.3 1 17 6 140 19 2.3 1 11 8 141 15 2.3 1 10 5 142 11 2.3 1 8 3 143 13 2.3 1 7 6 144 18 2.3 1 9 9 145 17 2.3 1 7 10 146 10 2.3 1 7 3 147 10 2.3 1 5 5 148 16 2.3 1 7 9 149 16 2.3 1 5 11 150 17 2.3 1 2 15 RUN STATISTICS FOR INPUT FILE: ERR13913476_2.fastq.gz ============================================= 151439032 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 151439032 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 30316 (0.02%)