This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGATCC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 109.46 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 3,184,960 Reads with adapters: 619,880 (19.5%) Reads that were too short: 3,614 (0.1%) Reads written (passing filters): 616,266 (19.3%) Total basepairs processed: 958,672,960 bp Total written (filtered): 153,627,441 bp (16.0%) === Adapter 1 === Sequence: TGATCC; Type: regular 5'; Length: 6; Trimmed: 619880 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 711 777.6 0 711 7 12934 777.6 0 12934 8 1997 777.6 0 1997 9 8737 777.6 0 8737 10 50 777.6 0 50 11 67 777.6 0 67 12 354 777.6 0 354 13 26 777.6 0 26 14 17 777.6 0 17 15 22 777.6 0 22 16 35 777.6 0 35 17 78 777.6 0 78 18 25 777.6 0 25 19 119 777.6 0 119 20 71 777.6 0 71 21 207 777.6 0 207 22 391 777.6 0 391 23 81 777.6 0 81 24 165 777.6 0 165 25 192 777.6 0 192 26 103 777.6 0 103 27 334 777.6 0 334 28 233 777.6 0 233 29 239 777.6 0 239 30 120 777.6 0 120 31 182 777.6 0 182 32 254 777.6 0 254 33 402 777.6 0 402 34 746 777.6 0 746 35 1285 777.6 0 1285 36 1560 777.6 0 1560 37 2139 777.6 0 2139 38 3518 777.6 0 3518 39 72366 777.6 0 72366 40 59293 777.6 0 59293 41 53605 777.6 0 53605 42 740 777.6 0 740 43 885 777.6 0 885 44 1042 777.6 0 1042 45 1922 777.6 0 1922 46 4231 777.6 0 4231 47 668 777.6 0 668 48 977 777.6 0 977 49 2693 777.6 0 2693 50 1591 777.6 0 1591 51 1096 777.6 0 1096 52 2386 777.6 0 2386 53 1737 777.6 0 1737 54 3090 777.6 0 3090 55 1715 777.6 0 1715 56 2754 777.6 0 2754 57 2616 777.6 0 2616 58 4725 777.6 0 4725 59 69284 777.6 0 69284 60 154247 777.6 0 154247 61 128491 777.6 0 128491 62 579 777.6 0 579 63 17 777.6 0 17 64 9 777.6 0 9 65 5 777.6 0 5 66 3 777.6 0 3 67 8 777.6 0 8 68 4 777.6 0 4 69 6 777.6 0 6 70 7 777.6 0 7 71 16 777.6 0 16 72 98 777.6 0 98 73 433 777.6 0 433 74 109 777.6 0 109 75 14 777.6 0 14 76 3 777.6 0 3 77 4 777.6 0 4 78 2 777.6 0 2 79 2 777.6 0 2 80 5 777.6 0 5 81 4 777.6 0 4 82 12 777.6 0 12 83 17 777.6 0 17 84 3 777.6 0 3 85 5 777.6 0 5 86 3 777.6 0 3 87 2 777.6 0 2 88 6 777.6 0 6 89 17 777.6 0 17 90 1 777.6 0 1 91 9 777.6 0 9 92 8 777.6 0 8 93 7 777.6 0 7 94 9 777.6 0 9 95 10 777.6 0 10 96 7 777.6 0 7 97 18 777.6 0 18 98 48 777.6 0 48 99 96 777.6 0 96 100 5 777.6 0 5 101 188 777.6 0 188 102 196 777.6 0 196 103 242 777.6 0 242 104 26 777.6 0 26 105 23 777.6 0 23 106 9 777.6 0 9 107 5 777.6 0 5 108 9 777.6 0 9 109 10 777.6 0 10 110 13 777.6 0 13 111 137 777.6 0 137 112 103 777.6 0 103 113 437 777.6 0 437 114 4 777.6 0 4 115 3 777.6 0 3 116 3 777.6 0 3 117 86 777.6 0 86 118 15 777.6 0 15 119 23 777.6 0 23 120 8 777.6 0 8 121 10 777.6 0 10 122 14 777.6 0 14 123 10 777.6 0 10 124 32 777.6 0 32 125 306 777.6 0 306 126 70 777.6 0 70 127 61 777.6 0 61 128 49 777.6 0 49 129 24 777.6 0 24 130 29 777.6 0 29 131 16 777.6 0 16 132 19 777.6 0 19 133 25 777.6 0 25 134 17 777.6 0 17 135 10 777.6 0 10 136 14 777.6 0 14 137 22 777.6 0 22 138 19 777.6 0 19 139 14 777.6 0 14 140 6 777.6 0 6 141 9 777.6 0 9 142 5 777.6 0 5 143 39 777.6 0 39 144 4 777.6 0 4 145 10 777.6 0 10 146 9 777.6 0 9 147 24 777.6 0 24 148 21 777.6 0 21 149 10 777.6 0 10 150 7 777.6 0 7 151 6 777.6 0 6 152 11 777.6 0 11 153 6 777.6 0 6 154 9 777.6 0 9 155 9 777.6 0 9 156 33 777.6 0 33 157 76 777.6 0 76 158 98 777.6 0 98 159 191 777.6 0 191 160 89 777.6 0 89 161 128 777.6 0 128 162 80 777.6 0 80 163 40 777.6 0 40 164 37 777.6 0 37 165 9 777.6 0 9 166 21 777.6 0 21 167 12 777.6 0 12 168 36 777.6 0 36 169 205 777.6 0 205 170 75 777.6 0 75 171 32 777.6 0 32 172 24 777.6 0 24 173 5 777.6 0 5 174 10 777.6 0 10 175 3 777.6 0 3 176 15 777.6 0 15 177 17 777.6 0 17 178 31 777.6 0 31 179 19 777.6 0 19 180 7 777.6 0 7 181 13 777.6 0 13 182 12 777.6 0 12 183 70 777.6 0 70 184 52 777.6 0 52 185 33 777.6 0 33 186 15 777.6 0 15 187 35 777.6 0 35 188 79 777.6 0 79 189 46 777.6 0 46 190 9 777.6 0 9 191 10 777.6 0 10 192 18 777.6 0 18 193 19 777.6 0 19 194 13 777.6 0 13 195 20 777.6 0 20 196 30 777.6 0 30 197 77 777.6 0 77 198 252 777.6 0 252 199 191 777.6 0 191 200 309 777.6 0 309 201 25 777.6 0 25 202 8 777.6 0 8 203 3 777.6 0 3 204 16 777.6 0 16 205 39 777.6 0 39 206 22 777.6 0 22 207 17 777.6 0 17 208 29 777.6 0 29 209 17 777.6 0 17 210 10 777.6 0 10 211 11 777.6 0 11 212 16 777.6 0 16 213 22 777.6 0 22 214 32 777.6 0 32 215 28 777.6 0 28 216 21 777.6 0 21 217 16 777.6 0 16 218 14 777.6 0 14 219 18 777.6 0 18 220 22 777.6 0 22 221 15 777.6 0 15 222 55 777.6 0 55 223 45 777.6 0 45 224 62 777.6 0 62 225 134 777.6 0 134 226 606 777.6 0 606 227 166 777.6 0 166 228 516 777.6 0 516 229 293 777.6 0 293 230 64 777.6 0 64 231 5 777.6 0 5 232 4 777.6 0 4 233 10 777.6 0 10 234 10 777.6 0 10 235 9 777.6 0 9 236 8 777.6 0 8 237 11 777.6 0 11 238 19 777.6 0 19 239 14 777.6 0 14 240 9 777.6 0 9 241 9 777.6 0 9 242 16 777.6 0 16 243 5 777.6 0 5 244 12 777.6 0 12 245 12 777.6 0 12 246 9 777.6 0 9 247 9 777.6 0 9 248 9 777.6 0 9 249 11 777.6 0 11 250 10 777.6 0 10 251 14 777.6 0 14 252 10 777.6 0 10 253 29 777.6 0 29 254 33 777.6 0 33 255 35 777.6 0 35 256 43 777.6 0 43 257 28 777.6 0 28 258 17 777.6 0 17 259 9 777.6 0 9 260 15 777.6 0 15 261 17 777.6 0 17 262 10 777.6 0 10 263 46 777.6 0 46 264 59 777.6 0 59 265 42 777.6 0 42 266 7 777.6 0 7 267 5 777.6 0 5 268 4 777.6 0 4 269 10 777.6 0 10 270 13 777.6 0 13 271 8 777.6 0 8 272 20 777.6 0 20 273 25 777.6 0 25 274 54 777.6 0 54 275 75 777.6 0 75 276 28 777.6 0 28 277 26 777.6 0 26 278 7 777.6 0 7 279 12 777.6 0 12 280 10 777.6 0 10 281 17 777.6 0 17 282 33 777.6 0 33 283 21 777.6 0 21 284 12 777.6 0 12 285 31 777.6 0 31 286 10 777.6 0 10 287 11 777.6 0 11 288 11 777.6 0 11 289 19 777.6 0 19 290 40 777.6 0 40 291 28 777.6 0 28 292 20 777.6 0 20 293 22 777.6 0 22 294 2 777.6 0 2 295 17 777.6 0 17 296 10 777.6 0 10 297 6 777.6 0 6 298 9 777.6 0 9 299 30 777.6 0 30 300 25 777.6 0 25 301 11 777.6 0 11 Finished in 35.73 s (58 us/read; 1.03 M reads/minute). === Summary === Total reads processed: 616,266 Reads with adapters: 12,659 (2.1%) Reads that were too short: 33 (0.0%) Reads written (passing filters): 12,626 (2.0%) Total basepairs processed: 153,627,441 bp Total written (filtered): 2,296,277 bp (1.5%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 12659 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 18 1 0.0 3 0 0 1 19 4 0.0 3 0 4 20 1800 0.0 4 1776 23 1 21 2 0.0 4 0 2 22 1 0.0 4 1 23 2 0.0 4 2 39 1 0.0 4 0 0 0 0 1 65 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 73 12 0.0 4 0 0 0 0 12 74 12 0.0 4 0 0 0 0 12 75 10618 0.0 4 0 0 0 0 10618 77 1 0.0 4 0 0 0 0 1 78 2 0.0 4 0 0 0 0 2 83 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 92 1 0.0 4 1 94 24 0.0 4 0 0 0 0 24 125 3 0.0 4 0 0 0 0 3 126 31 0.0 4 0 0 0 0 31 127 106 0.0 4 0 0 0 0 106 139 2 0.0 4 0 0 0 0 2 140 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 170 2 0.0 4 0 0 0 0 2 171 1 0.0 4 1 174 1 0.0 4 0 0 0 0 1 176 9 0.0 4 0 0 0 0 9 180 1 0.0 4 0 0 0 0 1 197 1 0.0 4 0 0 0 0 1 202 2 0.0 4 0 0 0 0 2 208 1 0.0 4 0 0 0 0 1 229 2 0.0 4 0 0 0 0 2 230 6 0.0 4 0 0 0 0 6 231 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 239 1 0.0 4 0 0 0 0 1 240 1 0.0 4 0 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.42 s (33 us/read; 1.80 M reads/minute). === Summary === Total reads processed: 12,626 Reads with adapters: 267 (2.1%) Reads written (passing filters): 12,626 (100.0%) Total basepairs processed: 2,296,277 bp Total written (filtered): 2,267,084 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 267 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 41.2% C: 39.7% G: 18.4% T: 0.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 13 197.3 0 13 4 80 49.3 0 80 5 19 12.3 0 19 11 49 0.0 1 0 49 265 1 0.0 1 1 266 101 0.0 1 97 4 267 3 0.0 1 3 268 1 0.0 1 1