This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GAAGCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 98.83 s (32 us/read; 1.88 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 149,797 (4.8%) Reads that were too short: 13,012 (0.4%) Reads written (passing filters): 136,785 (4.4%) Total basepairs processed: 931,490,553 bp Total written (filtered): 22,957,118 bp (2.5%) === Adapter 1 === Sequence: GAAGCT; Type: regular 5'; Length: 6; Trimmed: 149797 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 60 755.5 0 60 7 23 755.5 0 23 8 405 755.5 0 405 9 17 755.5 0 17 10 22 755.5 0 22 11 10 755.5 0 10 12 37 755.5 0 37 13 9 755.5 0 9 14 13 755.5 0 13 15 9 755.5 0 9 16 14 755.5 0 14 17 11 755.5 0 11 18 17 755.5 0 17 19 5 755.5 0 5 20 8 755.5 0 8 21 15 755.5 0 15 22 17 755.5 0 17 23 16 755.5 0 16 24 13 755.5 0 13 25 10 755.5 0 10 26 17 755.5 0 17 27 13 755.5 0 13 28 12 755.5 0 12 29 12 755.5 0 12 30 7 755.5 0 7 31 11 755.5 0 11 32 25 755.5 0 25 33 14 755.5 0 14 34 17 755.5 0 17 35 36 755.5 0 36 36 38 755.5 0 38 37 11 755.5 0 11 38 22 755.5 0 22 39 11 755.5 0 11 40 12 755.5 0 12 41 15 755.5 0 15 42 16 755.5 0 16 43 15 755.5 0 15 44 11 755.5 0 11 45 17 755.5 0 17 46 12 755.5 0 12 47 14 755.5 0 14 48 11 755.5 0 11 49 16 755.5 0 16 50 9 755.5 0 9 51 15 755.5 0 15 52 9 755.5 0 9 53 12 755.5 0 12 54 41 755.5 0 41 55 58 755.5 0 58 56 14 755.5 0 14 57 13 755.5 0 13 58 11 755.5 0 11 59 30 755.5 0 30 60 18 755.5 0 18 61 14 755.5 0 14 62 19 755.5 0 19 63 25 755.5 0 25 64 48 755.5 0 48 65 12 755.5 0 12 66 13 755.5 0 13 67 13 755.5 0 13 68 9 755.5 0 9 69 14 755.5 0 14 70 23 755.5 0 23 71 21 755.5 0 21 72 23 755.5 0 23 73 21 755.5 0 21 74 17 755.5 0 17 75 25 755.5 0 25 76 57 755.5 0 57 77 55 755.5 0 55 78 86 755.5 0 86 79 166 755.5 0 166 80 269 755.5 0 269 81 5591 755.5 0 5591 82 1806 755.5 0 1806 83 1317 755.5 0 1317 84 130 755.5 0 130 85 93 755.5 0 93 86 97 755.5 0 97 87 249 755.5 0 249 88 63 755.5 0 63 89 47 755.5 0 47 90 16 755.5 0 16 91 29 755.5 0 29 92 65 755.5 0 65 93 38 755.5 0 38 94 41 755.5 0 41 95 37 755.5 0 37 96 32 755.5 0 32 97 25 755.5 0 25 98 66 755.5 0 66 99 61 755.5 0 61 100 28 755.5 0 28 101 19 755.5 0 19 102 40 755.5 0 40 103 35 755.5 0 35 104 60 755.5 0 60 105 54 755.5 0 54 106 100 755.5 0 100 107 80 755.5 0 80 108 212 755.5 0 212 109 600 755.5 0 600 110 127 755.5 0 127 111 160 755.5 0 160 112 412 755.5 0 412 113 178 755.5 0 178 114 174 755.5 0 174 115 301 755.5 0 301 116 413 755.5 0 413 117 336 755.5 0 336 118 523 755.5 0 523 119 614 755.5 0 614 120 870 755.5 0 870 121 800 755.5 0 800 122 6307 755.5 0 6307 123 11378 755.5 0 11378 124 65349 755.5 0 65349 125 293 755.5 0 293 126 61 755.5 0 61 127 35 755.5 0 35 128 41 755.5 0 41 129 50 755.5 0 50 130 45 755.5 0 45 131 38 755.5 0 38 132 33 755.5 0 33 133 57 755.5 0 57 134 52 755.5 0 52 135 67 755.5 0 67 136 48 755.5 0 48 137 52 755.5 0 52 138 46 755.5 0 46 139 70 755.5 0 70 140 43 755.5 0 43 141 48 755.5 0 48 142 62 755.5 0 62 143 70 755.5 0 70 144 125 755.5 0 125 145 254 755.5 0 254 146 1107 755.5 0 1107 147 58 755.5 0 58 148 37 755.5 0 37 149 31 755.5 0 31 150 31 755.5 0 31 151 139 755.5 0 139 152 67 755.5 0 67 153 82 755.5 0 82 154 55 755.5 0 55 155 170 755.5 0 170 156 90 755.5 0 90 157 56 755.5 0 56 158 78 755.5 0 78 159 76 755.5 0 76 160 51 755.5 0 51 161 67 755.5 0 67 162 65 755.5 0 65 163 59 755.5 0 59 164 109 755.5 0 109 165 285 755.5 0 285 166 94 755.5 0 94 167 121 755.5 0 121 168 83 755.5 0 83 169 53 755.5 0 53 170 279 755.5 0 279 171 68 755.5 0 68 172 115 755.5 0 115 173 105 755.5 0 105 174 50 755.5 0 50 175 95 755.5 0 95 176 129 755.5 0 129 177 231 755.5 0 231 178 268 755.5 0 268 179 231 755.5 0 231 180 469 755.5 0 469 181 844 755.5 0 844 182 15841 755.5 0 15841 183 7509 755.5 0 7509 184 3528 755.5 0 3528 185 72 755.5 0 72 186 29 755.5 0 29 187 16 755.5 0 16 188 46 755.5 0 46 189 129 755.5 0 129 190 270 755.5 0 270 191 40 755.5 0 40 192 25 755.5 0 25 193 26 755.5 0 26 194 40 755.5 0 40 195 57 755.5 0 57 196 84 755.5 0 84 197 142 755.5 0 142 198 39 755.5 0 39 199 26 755.5 0 26 200 32 755.5 0 32 201 47 755.5 0 47 202 103 755.5 0 103 203 48 755.5 0 48 204 31 755.5 0 31 205 37 755.5 0 37 206 42 755.5 0 42 207 27 755.5 0 27 208 78 755.5 0 78 209 64 755.5 0 64 210 60 755.5 0 60 211 72 755.5 0 72 212 47 755.5 0 47 213 54 755.5 0 54 214 53 755.5 0 53 215 58 755.5 0 58 216 62 755.5 0 62 217 70 755.5 0 70 218 37 755.5 0 37 219 20 755.5 0 20 220 40 755.5 0 40 221 76 755.5 0 76 222 125 755.5 0 125 223 78 755.5 0 78 224 40 755.5 0 40 225 39 755.5 0 39 226 43 755.5 0 43 227 32 755.5 0 32 228 50 755.5 0 50 229 31 755.5 0 31 230 24 755.5 0 24 231 27 755.5 0 27 232 52 755.5 0 52 233 72 755.5 0 72 234 46 755.5 0 46 235 27 755.5 0 27 236 32 755.5 0 32 237 33 755.5 0 33 238 40 755.5 0 40 239 46 755.5 0 46 240 393 755.5 0 393 241 123 755.5 0 123 242 181 755.5 0 181 243 85 755.5 0 85 244 62 755.5 0 62 245 61 755.5 0 61 246 47 755.5 0 47 247 31 755.5 0 31 248 18 755.5 0 18 249 89 755.5 0 89 250 84 755.5 0 84 251 126 755.5 0 126 252 111 755.5 0 111 253 64 755.5 0 64 254 55 755.5 0 55 255 58 755.5 0 58 256 34 755.5 0 34 257 16 755.5 0 16 258 15 755.5 0 15 259 40 755.5 0 40 260 87 755.5 0 87 261 501 755.5 0 501 262 636 755.5 0 636 263 2223 755.5 0 2223 264 149 755.5 0 149 265 73 755.5 0 73 266 53 755.5 0 53 267 52 755.5 0 52 268 135 755.5 0 135 269 124 755.5 0 124 270 98 755.5 0 98 271 59 755.5 0 59 272 63 755.5 0 63 273 43 755.5 0 43 274 36 755.5 0 36 275 144 755.5 0 144 276 155 755.5 0 155 277 300 755.5 0 300 278 82 755.5 0 82 279 41 755.5 0 41 280 25 755.5 0 25 281 61 755.5 0 61 282 128 755.5 0 128 283 227 755.5 0 227 284 215 755.5 0 215 285 82 755.5 0 82 286 38 755.5 0 38 287 72 755.5 0 72 288 73 755.5 0 73 289 106 755.5 0 106 290 576 755.5 0 576 291 1214 755.5 0 1214 292 341 755.5 0 341 293 133 755.5 0 133 294 120 755.5 0 120 295 152 755.5 0 152 296 261 755.5 0 261 297 264 755.5 0 264 298 98 755.5 0 98 299 77 755.5 0 77 300 30 755.5 0 30 301 56 755.5 0 56 Finished in 5.27 s (39 us/read; 1.56 M reads/minute). === Summary === Total reads processed: 136,785 Reads with adapters: 1,567 (1.1%) Reads that were too short: 707 (0.5%) Reads written (passing filters): 860 (0.6%) Total basepairs processed: 22,957,118 bp Total written (filtered): 168,087 bp (0.7%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 1567 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 15 1 0.0 3 0 0 1 16 3 0.0 3 0 2 1 17 372 0.0 3 358 13 1 18 11 0.0 3 0 0 7 4 19 11 0.0 3 1 0 0 10 20 1 0.0 3 0 0 0 1 22 6 0.0 3 0 0 0 6 25 2 0.0 3 0 0 0 2 29 1 0.0 3 0 0 1 34 28 0.0 3 0 0 0 28 41 1 0.0 3 0 1 47 1 0.0 3 0 0 0 1 48 1 0.0 3 0 0 0 1 49 15 0.0 3 0 0 0 15 50 294 0.0 3 0 0 0 294 51 41 0.0 3 0 0 0 41 52 5 0.0 3 0 0 1 4 53 34 0.0 3 0 0 0 34 54 7 0.0 3 0 0 0 7 55 1 0.0 3 0 0 0 1 61 4 0.0 3 0 0 0 4 73 2 0.0 3 0 0 0 2 74 2 0.0 3 0 0 0 2 76 2 0.0 3 0 0 0 2 77 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 0 1 101 6 0.0 3 0 0 1 5 102 4 0.0 3 0 0 1 3 106 9 0.0 3 0 0 0 9 110 3 0.0 3 0 0 0 3 114 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 118 1 0.0 3 0 0 0 1 121 2 0.0 3 0 0 0 2 138 2 0.0 3 0 0 0 2 144 1 0.0 3 0 0 0 1 153 1 0.0 3 0 0 0 1 154 1 0.0 3 0 0 0 1 157 2 0.0 3 0 0 0 2 161 24 0.0 3 0 0 0 24 162 210 0.0 3 0 0 2 208 163 36 0.0 3 0 0 1 35 164 50 0.0 3 0 0 0 50 165 325 0.0 3 0 0 5 320 166 32 0.0 3 0 0 1 31 170 1 0.0 3 0 0 0 1 171 1 0.0 3 0 0 0 1 175 1 0.0 3 0 0 0 1 209 1 0.0 3 0 0 0 1 214 1 0.0 3 0 0 0 1 220 1 0.0 3 0 0 0 1 230 1 0.0 3 0 0 0 1 272 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 0.03 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 860 Reads with adapters: 197 (22.9%) Reads written (passing filters): 860 (100.0%) Total basepairs processed: 168,087 bp Total written (filtered): 167,493 bp (99.6%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 197 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 82.2% C: 8.1% G: 3.0% T: 6.6% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 194 13.4 0 194 4 3 3.4 0 3 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.