This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 97.74 s (31 us/read; 1.96 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 411,621 (12.9%) Reads that were too short: 3,169 (0.1%) Reads written (passing filters): 408,452 (12.8%) Total basepairs processed: 961,105,341 bp Total written (filtered): 105,896,085 bp (11.0%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 411621 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1117 779.6 0 1117 7 52787 779.6 0 52787 8 3229 779.6 0 3229 9 156 779.6 0 156 10 260 779.6 0 260 11 130 779.6 0 130 12 121 779.6 0 121 13 362 779.6 0 362 14 365 779.6 0 365 15 320 779.6 0 320 16 277 779.6 0 277 17 438 779.6 0 438 18 517 779.6 0 517 19 913 779.6 0 913 20 14604 779.6 0 14604 21 26143 779.6 0 26143 22 36041 779.6 0 36041 23 232 779.6 0 232 24 145 779.6 0 145 25 290 779.6 0 290 26 89 779.6 0 89 27 91 779.6 0 91 28 49 779.6 0 49 29 94 779.6 0 94 30 93 779.6 0 93 31 175 779.6 0 175 32 265 779.6 0 265 33 475 779.6 0 475 34 460 779.6 0 460 35 986 779.6 0 986 36 2213 779.6 0 2213 37 484 779.6 0 484 38 748 779.6 0 748 39 1372 779.6 0 1372 40 708 779.6 0 708 41 571 779.6 0 571 42 1064 779.6 0 1064 43 968 779.6 0 968 44 1156 779.6 0 1156 45 1088 779.6 0 1088 46 1484 779.6 0 1484 47 1906 779.6 0 1906 48 3369 779.6 0 3369 49 55872 779.6 0 55872 50 83664 779.6 0 83664 51 95545 779.6 0 95545 52 430 779.6 0 430 53 34 779.6 0 34 54 17 779.6 0 17 55 14 779.6 0 14 56 25 779.6 0 25 57 65 779.6 0 65 58 14 779.6 0 14 59 85 779.6 0 85 60 19 779.6 0 19 61 18 779.6 0 18 62 192 779.6 0 192 63 134 779.6 0 134 64 2413 779.6 0 2413 65 109 779.6 0 109 66 6 779.6 0 6 67 10 779.6 0 10 68 6 779.6 0 6 69 9 779.6 0 9 70 17 779.6 0 17 71 9 779.6 0 9 72 9 779.6 0 9 73 8 779.6 0 8 74 6 779.6 0 6 75 8 779.6 0 8 76 5 779.6 0 5 77 11 779.6 0 11 78 12 779.6 0 12 79 12 779.6 0 12 80 15 779.6 0 15 81 8 779.6 0 8 82 9 779.6 0 9 83 14 779.6 0 14 84 16 779.6 0 16 85 21 779.6 0 21 86 28 779.6 0 28 87 10 779.6 0 10 88 16 779.6 0 16 89 25 779.6 0 25 90 7 779.6 0 7 91 5 779.6 0 5 92 8 779.6 0 8 93 9 779.6 0 9 94 12 779.6 0 12 95 9 779.6 0 9 96 3 779.6 0 3 97 7 779.6 0 7 98 14 779.6 0 14 99 7 779.6 0 7 100 7 779.6 0 7 101 4 779.6 0 4 102 15 779.6 0 15 103 7 779.6 0 7 104 12 779.6 0 12 105 8 779.6 0 8 106 8 779.6 0 8 107 6 779.6 0 6 108 7 779.6 0 7 109 4 779.6 0 4 110 11 779.6 0 11 111 5 779.6 0 5 112 11 779.6 0 11 113 3 779.6 0 3 114 7 779.6 0 7 115 4 779.6 0 4 116 13 779.6 0 13 117 31 779.6 0 31 118 62 779.6 0 62 119 47 779.6 0 47 120 15 779.6 0 15 121 13 779.6 0 13 122 18 779.6 0 18 123 11 779.6 0 11 124 90 779.6 0 90 125 48 779.6 0 48 126 26 779.6 0 26 127 11 779.6 0 11 128 36 779.6 0 36 129 12 779.6 0 12 130 27 779.6 0 27 131 64 779.6 0 64 132 14 779.6 0 14 133 7 779.6 0 7 134 10 779.6 0 10 135 9 779.6 0 9 136 5 779.6 0 5 137 5 779.6 0 5 138 8 779.6 0 8 139 13 779.6 0 13 140 13 779.6 0 13 141 11 779.6 0 11 142 7 779.6 0 7 143 9 779.6 0 9 144 11 779.6 0 11 145 10 779.6 0 10 146 9 779.6 0 9 147 10 779.6 0 10 148 9 779.6 0 9 149 8 779.6 0 8 150 8 779.6 0 8 151 6 779.6 0 6 152 7 779.6 0 7 153 5 779.6 0 5 154 6 779.6 0 6 155 6 779.6 0 6 156 14 779.6 0 14 157 14 779.6 0 14 158 27 779.6 0 27 159 41 779.6 0 41 160 7 779.6 0 7 161 9 779.6 0 9 162 11 779.6 0 11 163 7 779.6 0 7 164 9 779.6 0 9 165 10 779.6 0 10 166 6 779.6 0 6 167 8 779.6 0 8 168 10 779.6 0 10 169 12 779.6 0 12 170 13 779.6 0 13 171 10 779.6 0 10 172 12 779.6 0 12 173 13 779.6 0 13 174 6 779.6 0 6 175 9 779.6 0 9 176 15 779.6 0 15 177 27 779.6 0 27 178 31 779.6 0 31 179 33 779.6 0 33 180 70 779.6 0 70 181 62 779.6 0 62 182 467 779.6 0 467 183 686 779.6 0 686 184 544 779.6 0 544 185 37 779.6 0 37 186 45 779.6 0 45 187 45 779.6 0 45 188 46 779.6 0 46 189 43 779.6 0 43 190 43 779.6 0 43 191 74 779.6 0 74 192 147 779.6 0 147 193 2348 779.6 0 2348 194 1599 779.6 0 1599 195 2424 779.6 0 2424 196 928 779.6 0 928 197 191 779.6 0 191 198 42 779.6 0 42 199 14 779.6 0 14 200 10 779.6 0 10 201 8 779.6 0 8 202 5 779.6 0 5 203 5 779.6 0 5 204 6 779.6 0 6 205 15 779.6 0 15 206 47 779.6 0 47 207 12 779.6 0 12 208 15 779.6 0 15 209 15 779.6 0 15 210 13 779.6 0 13 211 7 779.6 0 7 212 16 779.6 0 16 213 144 779.6 0 144 214 64 779.6 0 64 215 102 779.6 0 102 216 69 779.6 0 69 217 20 779.6 0 20 218 21 779.6 0 21 219 47 779.6 0 47 220 25 779.6 0 25 221 41 779.6 0 41 222 31 779.6 0 31 223 18 779.6 0 18 224 6 779.6 0 6 225 18 779.6 0 18 226 20 779.6 0 20 227 65 779.6 0 65 228 6 779.6 0 6 229 12 779.6 0 12 230 14 779.6 0 14 231 10 779.6 0 10 232 12 779.6 0 12 233 8 779.6 0 8 234 31 779.6 0 31 235 11 779.6 0 11 236 34 779.6 0 34 237 23 779.6 0 23 238 19 779.6 0 19 239 41 779.6 0 41 240 155 779.6 0 155 241 127 779.6 0 127 242 38 779.6 0 38 243 11 779.6 0 11 244 8 779.6 0 8 245 17 779.6 0 17 246 24 779.6 0 24 247 40 779.6 0 40 248 17 779.6 0 17 249 18 779.6 0 18 250 116 779.6 0 116 251 136 779.6 0 136 252 78 779.6 0 78 253 42 779.6 0 42 254 12 779.6 0 12 255 9 779.6 0 9 256 17 779.6 0 17 257 33 779.6 0 33 258 16 779.6 0 16 259 13 779.6 0 13 260 6 779.6 0 6 261 10 779.6 0 10 262 7 779.6 0 7 263 34 779.6 0 34 264 38 779.6 0 38 265 81 779.6 0 81 266 59 779.6 0 59 267 23 779.6 0 23 268 12 779.6 0 12 269 10 779.6 0 10 270 9 779.6 0 9 271 8 779.6 0 8 272 8 779.6 0 8 273 7 779.6 0 7 274 13 779.6 0 13 275 15 779.6 0 15 276 8 779.6 0 8 277 11 779.6 0 11 278 8 779.6 0 8 279 9 779.6 0 9 280 7 779.6 0 7 281 9 779.6 0 9 282 12 779.6 0 12 283 21 779.6 0 21 284 23 779.6 0 23 285 23 779.6 0 23 286 49 779.6 0 49 287 28 779.6 0 28 288 57 779.6 0 57 289 173 779.6 0 173 290 99 779.6 0 99 291 17 779.6 0 17 292 9 779.6 0 9 293 20 779.6 0 20 294 102 779.6 0 102 295 20 779.6 0 20 296 7 779.6 0 7 297 9 779.6 0 9 298 5 779.6 0 5 299 6 779.6 0 6 300 59 779.6 0 59 301 43 779.6 0 43 Finished in 19.22 s (47 us/read; 1.28 M reads/minute). === Summary === Total reads processed: 408,452 Reads with adapters: 54,212 (13.3%) Reads that were too short: 534 (0.1%) Reads written (passing filters): 53,678 (13.1%) Total basepairs processed: 105,896,085 bp Total written (filtered): 14,763,294 bp (13.9%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 54212 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 2 0.0 2 0 0 0 2 15 11 0.0 3 0 0 11 16 390 0.0 3 0 379 10 1 17 52360 0.0 3 51336 999 22 3 18 144 0.0 3 8 132 3 1 19 16 0.0 3 0 0 15 1 20 50 0.0 3 0 0 1 49 27 1 0.0 3 0 0 0 1 34 2 0.0 3 0 0 0 2 40 1 0.0 3 0 0 0 1 51 20 0.0 3 0 0 0 20 60 1 0.0 3 0 0 0 1 71 1 0.0 3 1 73 28 0.0 3 0 0 0 28 74 4 0.0 3 0 0 0 4 75 1 0.0 3 0 0 0 1 80 5 0.0 3 0 0 0 5 86 1 0.0 3 0 0 0 1 90 4 0.0 3 0 0 0 4 91 1 0.0 3 0 0 0 1 92 5 0.0 3 0 0 0 5 93 9 0.0 3 0 0 1 8 97 1 0.0 3 0 0 0 1 98 25 0.0 3 0 0 0 25 99 2 0.0 3 0 0 0 2 101 6 0.0 3 0 0 0 6 102 3 0.0 3 0 0 0 3 103 2 0.0 3 0 0 0 2 114 2 0.0 3 0 0 0 2 117 1 0.0 3 0 0 0 1 118 3 0.0 3 0 0 0 3 121 1 0.0 3 0 0 0 1 122 28 0.0 3 0 0 0 28 123 87 0.0 3 0 0 0 87 124 9 0.0 3 0 0 0 9 125 25 0.0 3 0 0 1 24 126 35 0.0 3 0 0 0 35 127 13 0.0 3 0 0 0 13 128 19 0.0 3 0 0 0 19 131 10 0.0 3 0 0 0 10 134 1 0.0 3 0 0 0 1 135 1 0.0 3 0 0 0 1 136 1 0.0 3 0 0 0 1 137 2 0.0 3 0 0 0 2 138 2 0.0 3 0 0 0 2 139 17 0.0 3 0 0 0 17 140 8 0.0 3 0 0 0 8 142 36 0.0 3 0 0 0 36 143 5 0.0 3 0 0 0 5 145 32 0.0 3 0 0 1 31 146 9 0.0 3 0 0 0 9 148 1 0.0 3 0 0 0 1 149 2 0.0 3 0 0 0 2 151 8 0.0 3 0 0 0 8 152 7 0.0 3 0 0 0 7 153 2 0.0 3 0 0 0 2 154 3 0.0 3 0 0 0 3 155 2 0.0 3 0 0 0 2 160 1 0.0 3 1 161 1 0.0 3 0 0 0 1 166 1 0.0 3 0 0 0 1 168 4 0.0 3 0 0 0 4 170 122 0.0 3 0 0 1 121 171 37 0.0 3 0 0 0 37 172 22 0.0 3 0 0 0 22 174 35 0.0 3 0 0 0 35 175 4 0.0 3 0 0 0 4 178 1 0.0 3 0 0 0 1 184 2 0.0 3 0 0 0 2 190 1 0.0 3 0 0 0 1 195 1 0.0 3 1 201 1 0.0 3 0 0 0 1 202 2 0.0 3 0 0 0 2 206 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 219 1 0.0 3 0 0 0 1 221 1 0.0 3 0 0 0 1 225 1 0.0 3 0 1 226 1 0.0 3 0 0 0 1 229 1 0.0 3 0 0 0 1 230 1 0.0 3 0 0 0 1 232 1 0.0 3 0 0 0 1 234 24 0.0 3 0 0 0 24 235 41 0.0 3 0 0 0 41 236 13 0.0 3 0 0 0 13 237 37 0.0 3 0 0 0 37 238 261 0.0 3 0 0 3 258 239 31 0.0 3 0 0 1 30 242 1 0.0 3 0 0 0 1 243 3 0.0 3 0 0 0 3 244 29 0.0 3 0 0 0 29 245 2 0.0 3 0 0 0 2 246 1 0.0 3 0 0 0 1 247 1 0.0 3 0 0 0 1 250 3 0.0 3 0 0 0 3 251 4 0.0 3 0 0 0 4 252 1 0.0 3 0 0 0 1 255 1 0.0 3 0 0 0 1 258 1 0.0 3 0 0 0 1 263 5 0.0 3 0 0 0 5 264 2 0.0 3 0 0 0 2 265 4 0.0 3 0 0 0 4 266 10 0.0 3 0 0 0 10 267 17 0.0 3 0 0 0 17 268 1 0.0 3 0 0 0 1 272 3 0.0 3 0 0 0 3 273 3 0.0 3 0 0 1 2 279 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 2.26 s (42 us/read; 1.43 M reads/minute). === Summary === Total reads processed: 53,678 Reads with adapters: 2,470 (4.6%) Reads written (passing filters): 53,678 (100.0%) Total basepairs processed: 14,763,294 bp Total written (filtered): 14,755,872 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 2470 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 8.2% C: 85.7% G: 4.7% T: 1.4% none/other: 0.0% WARNING: The adapter is preceded by "C" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "C" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 2458 838.7 0 2458 4 12 209.7 0 12 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.