SUMMARISING RUN PARAMETERS ========================== Input filename: SRR18245606_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: 5716). 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 SRR18245606_1.fastq.gz Processing single-end reads on 1 core ... Finished in 3791.507 s (54.517 µs/read; 1.10 M reads/minute). === Summary === Total reads processed: 69,547,451 Reads with adapters: 26,813,060 (38.6%) Reads written (passing filters): 69,547,451 (100.0%) Total basepairs processed: 10,432,117,650 bp Quality-trimmed: 9,389,757 bp (0.1%) Total written (filtered): 10,353,995,074 bp (99.3%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 26813060 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 37.0% C: 1.5% G: 12.7% T: 48.5% none/other: 0.3% Overview of removed sequences length count expect max.err error counts 1 21530231 17386862.8 0 21530231 2 3083988 4346715.7 0 3083988 3 1195996 1086678.9 0 1195996 4 522593 271669.7 0 522593 5 10146 67917.4 0 10146 6 8664 16979.4 0 8664 7 7674 4244.8 0 7674 8 7992 1061.2 0 7992 9 8786 265.3 0 8269 517 10 7824 66.3 1 6622 1202 11 8127 16.6 1 7370 757 12 7273 4.1 1 6892 381 13 6364 1.0 1 6092 272 14 7036 1.0 1 6513 523 15 6229 1.0 1 5962 267 16 6958 1.0 1 6380 578 17 6586 1.0 1 6147 439 18 5902 1.0 1 5633 269 19 5568 1.0 1 5256 312 20 5501 1.0 1 5258 243 21 5652 1.0 1 5363 289 22 5087 1.0 1 4870 217 23 5210 1.0 1 4962 248 24 5601 1.0 1 5130 471 25 4749 1.0 1 4523 226 26 4616 1.0 1 4401 215 27 4707 1.0 1 4508 199 28 4138 1.0 1 3962 176 29 4822 1.0 1 4481 341 30 4108 1.0 1 3930 178 31 3959 1.0 1 3797 162 32 3762 1.0 1 3610 152 33 3985 1.0 1 3737 248 34 3891 1.0 1 3684 207 35 3557 1.0 1 3378 179 36 3376 1.0 1 3249 127 37 3406 1.0 1 3265 141 38 3618 1.0 1 3360 258 39 3183 1.0 1 3040 143 40 2936 1.0 1 2830 106 41 3000 1.0 1 2872 128 42 2962 1.0 1 2813 149 43 3597 1.0 1 3258 339 44 3139 1.0 1 2913 226 45 4147 1.0 1 4017 130 46 1385 1.0 1 1294 91 47 2167 1.0 1 2086 81 48 3289 1.0 1 3166 123 49 2483 1.0 1 2389 94 50 2521 1.0 1 2395 126 51 4073 1.0 1 3854 219 52 1718 1.0 1 1629 89 53 1237 1.0 1 1199 38 54 2424 1.0 1 2342 82 55 2776 1.0 1 2687 89 56 2536 1.0 1 2449 87 57 1904 1.0 1 1866 38 58 1379 1.0 1 1336 43 59 3204 1.0 1 3091 113 60 821 1.0 1 792 29 61 1115 1.0 1 1066 49 62 2206 1.0 1 2130 76 63 1519 1.0 1 1485 34 64 953 1.0 1 912 41 65 1818 1.0 1 1748 70 66 1928 1.0 1 1875 53 67 1161 1.0 1 1114 47 68 1997 1.0 1 1937 60 69 2173 1.0 1 2096 77 70 3929 1.0 1 3801 128 71 319 1.0 1 276 43 72 127 1.0 1 105 22 73 554 1.0 1 527 27 74 1023 1.0 1 995 28 75 1235 1.0 1 1200 35 76 1356 1.0 1 1317 39 77 1360 1.0 1 1314 46 78 1415 1.0 1 1340 75 79 1443 1.0 1 1389 54 80 1456 1.0 1 1409 47 81 1425 1.0 1 1382 43 82 1428 1.0 1 1384 44 83 1353 1.0 1 1308 45 84 1308 1.0 1 1262 46 85 1369 1.0 1 1318 51 86 1295 1.0 1 1256 39 87 1323 1.0 1 1292 31 88 1364 1.0 1 1298 66 89 1309 1.0 1 1271 38 90 1316 1.0 1 1277 39 91 1260 1.0 1 1235 25 92 1348 1.0 1 1310 38 93 1249 1.0 1 1211 38 94 1244 1.0 1 1209 35 95 1266 1.0 1 1234 32 96 1239 1.0 1 1190 49 97 1228 1.0 1 1194 34 98 1275 1.0 1 1227 48 99 1264 1.0 1 1226 38 100 1257 1.0 1 1229 28 101 1184 1.0 1 1146 38 102 1166 1.0 1 1139 27 103 1249 1.0 1 1210 39 104 1200 1.0 1 1173 27 105 1243 1.0 1 1210 33 106 1136 1.0 1 1106 30 107 1168 1.0 1 1138 30 108 1125 1.0 1 1098 27 109 1108 1.0 1 1077 31 110 1151 1.0 1 1124 27 111 1095 1.0 1 1064 31 112 1048 1.0 1 1027 21 113 1025 1.0 1 998 27 114 1039 1.0 1 1019 20 115 1007 1.0 1 987 20 116 993 1.0 1 972 21 117 933 1.0 1 923 10 118 1025 1.0 1 998 27 119 1020 1.0 1 997 23 120 1111 1.0 1 1094 17 121 1085 1.0 1 1065 20 122 1119 1.0 1 1098 21 123 1056 1.0 1 1031 25 124 1144 1.0 1 1130 14 125 977 1.0 1 958 19 126 1018 1.0 1 1004 14 127 783 1.0 1 768 15 128 738 1.0 1 720 18 129 660 1.0 1 650 10 130 610 1.0 1 600 10 131 564 1.0 1 547 17 132 600 1.0 1 587 13 133 611 1.0 1 598 13 134 575 1.0 1 568 7 135 518 1.0 1 515 3 136 506 1.0 1 492 14 137 604 1.0 1 596 8 138 809 1.0 1 792 17 139 836 1.0 1 827 9 140 1181 1.0 1 1162 19 141 1873 1.0 1 1848 25 142 2181 1.0 1 2162 19 143 3011 1.0 1 2973 38 144 4490 1.0 1 4436 54 145 8231 1.0 1 8137 94 146 5131 1.0 1 5087 44 147 1333 1.0 1 1297 36 148 22981 1.0 1 22670 311 149 8405 1.0 1 8229 176 150 77634 1.0 1 75944 1690 RUN STATISTICS FOR INPUT FILE: SRR18245606_1.fastq.gz ============================================= 69547451 sequences processed in total