This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CGGCCA -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 57.84 s (26 us/read; 2.32 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 105,902 (4.7%) Reads that were too short: 63,771 (2.8%) Reads written (passing filters): 42,131 (1.9%) Total basepairs processed: 673,916,425 bp Total written (filtered): 7,395,665 bp (1.1%) === Adapter 1 === Sequence: CGGCCA; Type: regular 5'; Length: 6; Trimmed: 105902 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 298 546.6 0 298 7 2487 546.6 0 2487 8 139 546.6 0 139 9 3062 546.6 0 3062 10 25 546.6 0 25 11 265 546.6 0 265 12 190 546.6 0 190 13 17 546.6 0 17 14 16 546.6 0 16 15 13 546.6 0 13 16 14 546.6 0 14 17 19 546.6 0 19 18 13 546.6 0 13 19 20 546.6 0 20 20 16 546.6 0 16 21 31 546.6 0 31 22 21 546.6 0 21 23 17 546.6 0 17 24 12 546.6 0 12 25 11 546.6 0 11 26 11 546.6 0 11 27 18 546.6 0 18 28 14 546.6 0 14 29 17 546.6 0 17 30 20 546.6 0 20 31 49 546.6 0 49 32 26 546.6 0 26 33 16 546.6 0 16 34 14 546.6 0 14 35 14 546.6 0 14 36 23 546.6 0 23 37 20 546.6 0 20 38 29 546.6 0 29 39 26 546.6 0 26 40 105 546.6 0 105 41 199 546.6 0 199 42 424 546.6 0 424 43 325 546.6 0 325 44 17 546.6 0 17 45 15 546.6 0 15 46 22 546.6 0 22 47 22 546.6 0 22 48 30 546.6 0 30 49 38 546.6 0 38 50 55 546.6 0 55 51 37 546.6 0 37 52 41 546.6 0 41 53 30 546.6 0 30 54 48 546.6 0 48 55 24 546.6 0 24 56 45 546.6 0 45 57 24 546.6 0 24 58 21 546.6 0 21 59 14 546.6 0 14 60 24 546.6 0 24 61 11 546.6 0 11 62 17 546.6 0 17 63 29 546.6 0 29 64 140 546.6 0 140 65 182 546.6 0 182 66 179 546.6 0 179 67 21 546.6 0 21 68 27 546.6 0 27 69 23 546.6 0 23 70 33 546.6 0 33 71 27 546.6 0 27 72 56 546.6 0 56 73 231 546.6 0 231 74 749 546.6 0 749 75 395 546.6 0 395 76 580 546.6 0 580 77 32 546.6 0 32 78 16 546.6 0 16 79 16 546.6 0 16 80 32 546.6 0 32 81 31 546.6 0 31 82 27 546.6 0 27 83 41 546.6 0 41 84 27 546.6 0 27 85 17 546.6 0 17 86 38 546.6 0 38 87 89 546.6 0 89 88 97 546.6 0 97 89 237 546.6 0 237 90 18 546.6 0 18 91 20 546.6 0 20 92 33 546.6 0 33 93 26 546.6 0 26 94 23 546.6 0 23 95 20 546.6 0 20 96 24 546.6 0 24 97 23 546.6 0 23 98 29 546.6 0 29 99 23 546.6 0 23 100 26 546.6 0 26 101 37 546.6 0 37 102 14 546.6 0 14 103 19 546.6 0 19 104 20 546.6 0 20 105 36 546.6 0 36 106 16 546.6 0 16 107 16 546.6 0 16 108 18 546.6 0 18 109 35 546.6 0 35 110 14 546.6 0 14 111 22 546.6 0 22 112 21 546.6 0 21 113 26 546.6 0 26 114 53 546.6 0 53 115 32 546.6 0 32 116 39 546.6 0 39 117 44 546.6 0 44 118 43 546.6 0 43 119 23 546.6 0 23 120 26 546.6 0 26 121 24 546.6 0 24 122 19 546.6 0 19 123 26 546.6 0 26 124 36 546.6 0 36 125 61 546.6 0 61 126 48 546.6 0 48 127 49 546.6 0 49 128 29 546.6 0 29 129 55 546.6 0 55 130 39 546.6 0 39 131 30 546.6 0 30 132 30 546.6 0 30 133 62 546.6 0 62 134 42 546.6 0 42 135 24 546.6 0 24 136 30 546.6 0 30 137 83 546.6 0 83 138 69 546.6 0 69 139 83 546.6 0 83 140 36 546.6 0 36 141 43 546.6 0 43 142 69 546.6 0 69 143 114 546.6 0 114 144 88 546.6 0 88 145 55 546.6 0 55 146 93 546.6 0 93 147 72 546.6 0 72 148 67 546.6 0 67 149 103 546.6 0 103 150 141 546.6 0 141 151 591 546.6 0 591 152 1457 546.6 0 1457 153 1133 546.6 0 1133 154 417 546.6 0 417 155 589 546.6 0 589 156 1830 546.6 0 1830 157 2987 546.6 0 2987 158 5536 546.6 0 5536 159 1025 546.6 0 1025 160 509 546.6 0 509 161 341 546.6 0 341 162 71 546.6 0 71 163 80 546.6 0 80 164 51 546.6 0 51 165 132 546.6 0 132 166 237 546.6 0 237 167 211 546.6 0 211 168 195 546.6 0 195 169 184 546.6 0 184 170 372 546.6 0 372 171 509 546.6 0 509 172 627 546.6 0 627 173 230 546.6 0 230 174 117 546.6 0 117 175 170 546.6 0 170 176 904 546.6 0 904 177 1492 546.6 0 1492 178 2442 546.6 0 2442 179 938 546.6 0 938 180 130 546.6 0 130 181 133 546.6 0 133 182 189 546.6 0 189 183 111 546.6 0 111 184 125 546.6 0 125 185 115 546.6 0 115 186 45 546.6 0 45 187 58 546.6 0 58 188 161 546.6 0 161 189 120 546.6 0 120 190 128 546.6 0 128 191 42 546.6 0 42 192 36 546.6 0 36 193 50 546.6 0 50 194 52 546.6 0 52 195 62 546.6 0 62 196 107 546.6 0 107 197 56 546.6 0 56 198 33 546.6 0 33 199 67 546.6 0 67 200 230 546.6 0 230 201 222 546.6 0 222 202 221 546.6 0 221 203 93 546.6 0 93 204 41 546.6 0 41 205 54 546.6 0 54 206 66 546.6 0 66 207 35 546.6 0 35 208 39 546.6 0 39 209 37 546.6 0 37 210 43 546.6 0 43 211 24 546.6 0 24 212 50 546.6 0 50 213 41 546.6 0 41 214 196 546.6 0 196 215 176 546.6 0 176 216 242 546.6 0 242 217 69 546.6 0 69 218 48 546.6 0 48 219 52 546.6 0 52 220 54 546.6 0 54 221 37 546.6 0 37 222 55 546.6 0 55 223 71 546.6 0 71 224 132 546.6 0 132 225 73 546.6 0 73 226 87 546.6 0 87 227 67 546.6 0 67 228 187 546.6 0 187 229 126 546.6 0 126 230 290 546.6 0 290 231 78 546.6 0 78 232 83 546.6 0 83 233 134 546.6 0 134 234 309 546.6 0 309 235 399 546.6 0 399 236 206 546.6 0 206 237 214 546.6 0 214 238 211 546.6 0 211 239 101 546.6 0 101 240 118 546.6 0 118 241 53 546.6 0 53 242 70 546.6 0 70 243 59 546.6 0 59 244 79 546.6 0 79 245 75 546.6 0 75 246 68 546.6 0 68 247 93 546.6 0 93 248 197 546.6 0 197 249 542 546.6 0 542 250 425 546.6 0 425 251 370 546.6 0 370 252 200 546.6 0 200 253 1402 546.6 0 1402 254 650 546.6 0 650 255 802 546.6 0 802 256 93 546.6 0 93 257 163 546.6 0 163 258 410 546.6 0 410 259 662 546.6 0 662 260 1265 546.6 0 1265 261 4775 546.6 0 4775 262 7415 546.6 0 7415 263 12549 546.6 0 12549 264 6178 546.6 0 6178 265 2615 546.6 0 2615 266 105 546.6 0 105 267 62 546.6 0 62 268 82 546.6 0 82 269 122 546.6 0 122 270 68 546.6 0 68 271 67 546.6 0 67 272 58 546.6 0 58 273 90 546.6 0 90 274 115 546.6 0 115 275 81 546.6 0 81 276 172 546.6 0 172 277 331 546.6 0 331 278 221 546.6 0 221 279 171 546.6 0 171 280 142 546.6 0 142 281 199 546.6 0 199 282 190 546.6 0 190 283 296 546.6 0 296 284 168 546.6 0 168 285 180 546.6 0 180 286 168 546.6 0 168 287 2012 546.6 0 2012 288 1092 546.6 0 1092 289 2251 546.6 0 2251 290 288 546.6 0 288 291 360 546.6 0 360 292 894 546.6 0 894 293 582 546.6 0 582 294 588 546.6 0 588 295 226 546.6 0 226 296 384 546.6 0 384 297 607 546.6 0 607 298 1540 546.6 0 1540 299 1692 546.6 0 1692 300 1873 546.6 0 1873 301 525 546.6 0 525 Finished in 1.62 s (38 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 42,131 Reads with adapters: 2,733 (6.5%) Reads that were too short: 41 (0.1%) Reads written (passing filters): 2,692 (6.4%) Total basepairs processed: 7,395,665 bp Total written (filtered): 734,675 bp (9.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 2733 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 19 21 0.0 3 0 20 0 0 1 20 2622 0.0 4 2489 109 20 3 1 21 9 0.0 4 2 6 1 22 2 0.0 4 1 0 1 23 11 0.0 4 0 0 0 8 3 31 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 49 1 0.0 4 0 0 1 56 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 0 1 64 4 0.0 4 0 0 0 0 4 65 10 0.0 4 0 0 0 0 10 66 4 0.0 4 0 0 0 0 4 67 1 0.0 4 0 0 0 0 1 70 13 0.0 4 0 0 0 0 13 74 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 85 1 0.0 4 0 0 0 0 1 86 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 1 93 1 0.0 4 0 0 0 0 1 106 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 115 2 0.0 4 0 0 0 1 1 126 1 0.0 4 0 0 0 0 1 127 9 0.0 4 0 0 0 0 9 134 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 1 225 1 0.0 4 0 0 0 0 1 228 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 0.09 s (33 us/read; 1.79 M reads/minute). === Summary === Total reads processed: 2,692 Reads with adapters: 165 (6.1%) Reads written (passing filters): 2,692 (100.0%) Total basepairs processed: 734,675 bp Total written (filtered): 731,541 bp (99.6%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 165 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 6.1% C: 12.1% G: 75.2% T: 6.7% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 9 42.1 0 9 4 2 10.5 0 2 10 7 0.0 1 1 6 11 105 0.0 1 3 102 12 34 0.0 1 2 32 13 1 0.0 1 0 1 152 2 0.0 1 1 1 225 1 0.0 1 1 231 4 0.0 1 4