SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245596_2.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: 8007). Second best hit was Nextera (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 SRR18245596_2.fastq.gz Processing single-end reads on 1 core ... Finished in 3727.077 s (44.736 µs/read; 1.34 M reads/minute). === Summary === Total reads processed: 83,312,485 Reads with adapters: 42,035,256 (50.5%) Reads written (passing filters): 83,312,485 (100.0%) Total basepairs processed: 12,496,872,750 bp Quality-trimmed: 36,376,094 bp (0.3%) Total written (filtered): 12,385,636,058 bp (99.1%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 42035256 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.5% C: 17.9% G: 0.3% T: 29.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 40955332 20828121.2 0 40955332 2 73324 5207030.3 0 73324 3 61281 1301757.6 0 61281 4 41296 325439.4 0 41296 5 33583 81359.8 0 33583 6 27984 20340.0 0 27984 7 28380 5085.0 0 28380 8 29329 1271.2 0 29329 9 20032 317.8 0 19929 103 10 26110 79.5 1 23362 2748 11 24232 19.9 1 21399 2833 12 24556 5.0 1 21835 2721 13 21919 1.2 1 19623 2296 14 23135 1.2 1 20453 2682 15 19685 1.2 1 17638 2047 16 19692 1.2 1 17542 2150 17 22725 1.2 1 20281 2444 18 14373 1.2 1 12897 1476 19 22587 1.2 1 20325 2262 20 15452 1.2 1 13976 1476 21 13416 1.2 1 12008 1408 22 15321 1.2 1 13771 1550 23 14624 1.2 1 13254 1370 24 18845 1.2 1 16877 1968 25 15602 1.2 1 14216 1386 26 10418 1.2 1 9262 1156 27 10624 1.2 1 9471 1153 28 12945 1.2 1 11873 1072 29 11244 1.2 1 10179 1065 30 12455 1.2 1 11352 1103 31 9957 1.2 1 9059 898 32 10885 1.2 1 9936 949 33 10945 1.2 1 9949 996 34 12326 1.2 1 11208 1118 35 9544 1.2 1 8644 900 36 8842 1.2 1 7930 912 37 12379 1.2 1 11498 881 38 7757 1.2 1 7017 740 39 9715 1.2 1 8921 794 40 10438 1.2 1 9546 892 41 4625 1.2 1 3981 644 42 9267 1.2 1 8611 656 43 6863 1.2 1 6012 851 44 21444 1.2 1 20270 1174 45 8868 1.2 1 8149 719 46 2804 1.2 1 2422 382 47 8480 1.2 1 8072 408 48 3272 1.2 1 2990 282 49 3697 1.2 1 3364 333 50 3134 1.2 1 2931 203 51 3176 1.2 1 2890 286 52 2311 1.2 1 2139 172 53 4704 1.2 1 4427 277 54 6768 1.2 1 6460 308 55 3227 1.2 1 2975 252 56 4831 1.2 1 4524 307 57 8456 1.2 1 8101 355 58 3941 1.2 1 3672 269 59 3511 1.2 1 3255 256 60 6766 1.2 1 6450 316 61 4209 1.2 1 4012 197 62 2515 1.2 1 2313 202 63 6399 1.2 1 6060 339 64 8260 1.2 1 7922 338 65 4796 1.2 1 4561 235 66 5011 1.2 1 4727 284 67 5646 1.2 1 5458 188 68 2427 1.2 1 2292 135 69 3158 1.2 1 3010 148 70 3630 1.2 1 3479 151 71 1851 1.2 1 1750 101 72 1172 1.2 1 1092 80 73 1022 1.2 1 948 74 74 1132 1.2 1 1056 76 75 1216 1.2 1 1142 74 76 1800 1.2 1 1697 103 77 1744 1.2 1 1624 120 78 2082 1.2 1 1953 129 79 2305 1.2 1 2166 139 80 2335 1.2 1 2195 140 81 2492 1.2 1 2356 136 82 2503 1.2 1 2364 139 83 2975 1.2 1 2836 139 84 2672 1.2 1 2523 149 85 2664 1.2 1 2543 121 86 2370 1.2 1 2254 116 87 2296 1.2 1 2177 119 88 2303 1.2 1 2186 117 89 2262 1.2 1 2146 116 90 2207 1.2 1 2094 113 91 2166 1.2 1 2056 110 92 2158 1.2 1 2060 98 93 2075 1.2 1 1979 96 94 2023 1.2 1 1928 95 95 1975 1.2 1 1890 85 96 1992 1.2 1 1889 103 97 2001 1.2 1 1887 114 98 1969 1.2 1 1884 85 99 2023 1.2 1 1937 86 100 2006 1.2 1 1930 76 101 1860 1.2 1 1765 95 102 1735 1.2 1 1646 89 103 1722 1.2 1 1635 87 104 1605 1.2 1 1524 81 105 1659 1.2 1 1568 91 106 1634 1.2 1 1556 78 107 1583 1.2 1 1495 88 108 1612 1.2 1 1540 72 109 1614 1.2 1 1535 79 110 1501 1.2 1 1429 72 111 1525 1.2 1 1464 61 112 1499 1.2 1 1432 67 113 1517 1.2 1 1455 62 114 1378 1.2 1 1319 59 115 1399 1.2 1 1328 71 116 1343 1.2 1 1293 50 117 1279 1.2 1 1195 84 118 1325 1.2 1 1216 109 119 1354 1.2 1 1218 136 120 1328 1.2 1 1149 179 121 1386 1.2 1 1096 290 122 1403 1.2 1 1011 392 123 1641 1.2 1 1023 618 124 1853 1.2 1 965 888 125 1928 1.2 1 870 1058 126 2234 1.2 1 823 1411 127 2324 1.2 1 755 1569 128 2522 1.2 1 719 1803 129 2439 1.2 1 732 1707 130 2032 1.2 1 638 1394 131 1599 1.2 1 642 957 132 1290 1.2 1 649 641 133 1084 1.2 1 625 459 134 977 1.2 1 562 415 135 945 1.2 1 548 397 136 871 1.2 1 485 386 137 684 1.2 1 413 271 138 593 1.2 1 361 232 139 538 1.2 1 321 217 140 416 1.2 1 266 150 141 445 1.2 1 320 125 142 377 1.2 1 252 125 143 357 1.2 1 229 128 144 400 1.2 1 286 114 145 513 1.2 1 364 149 146 248 1.2 1 157 91 147 59 1.2 1 27 32 148 290 1.2 1 215 75 149 160 1.2 1 105 55 150 1900 1.2 1 1531 369 RUN STATISTICS FOR INPUT FILE: SRR18245596_2.fastq.gz ============================================= 83312485 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 83312485 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 30759 (0.04%)