This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AAGTGT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 172.38 s (47 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 233,361 (6.4%) Reads that were too short: 19,021 (0.5%) Reads written (passing filters): 214,340 (5.9%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 59,340,364 bp (5.4%) === Adapter 1 === Sequence: AAGTGT; Type: regular 5'; Length: 6; Trimmed: 233361 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1861 887.3 0 1861 7 102259 887.3 0 102259 8 82562 887.3 0 82562 9 98 887.3 0 98 10 59 887.3 0 59 11 53 887.3 0 53 12 50 887.3 0 50 13 55 887.3 0 55 14 29 887.3 0 29 15 38 887.3 0 38 16 44 887.3 0 44 17 30 887.3 0 30 18 50 887.3 0 50 19 35 887.3 0 35 20 50 887.3 0 50 21 56 887.3 0 56 22 83 887.3 0 83 23 49 887.3 0 49 24 31 887.3 0 31 25 27 887.3 0 27 26 39 887.3 0 39 27 76 887.3 0 76 28 58 887.3 0 58 29 244 887.3 0 244 30 49 887.3 0 49 31 323 887.3 0 323 32 47 887.3 0 47 33 37 887.3 0 37 34 51 887.3 0 51 35 37 887.3 0 37 36 41 887.3 0 41 37 53 887.3 0 53 38 45 887.3 0 45 39 45 887.3 0 45 40 49 887.3 0 49 41 32 887.3 0 32 42 35 887.3 0 35 43 35 887.3 0 35 44 36 887.3 0 36 45 59 887.3 0 59 46 51 887.3 0 51 47 46 887.3 0 46 48 55 887.3 0 55 49 32 887.3 0 32 50 34 887.3 0 34 51 32 887.3 0 32 52 62 887.3 0 62 53 39 887.3 0 39 54 171 887.3 0 171 55 371 887.3 0 371 56 189 887.3 0 189 57 35 887.3 0 35 58 49 887.3 0 49 59 43 887.3 0 43 60 62 887.3 0 62 61 321 887.3 0 321 62 471 887.3 0 471 63 476 887.3 0 476 64 40 887.3 0 40 65 44 887.3 0 44 66 41 887.3 0 41 67 211 887.3 0 211 68 178 887.3 0 178 69 281 887.3 0 281 70 43 887.3 0 43 71 81 887.3 0 81 72 71 887.3 0 71 73 427 887.3 0 427 74 127 887.3 0 127 75 94 887.3 0 94 76 62 887.3 0 62 77 38 887.3 0 38 78 70 887.3 0 70 79 88 887.3 0 88 80 79 887.3 0 79 81 69 887.3 0 69 82 62 887.3 0 62 83 102 887.3 0 102 84 80 887.3 0 80 85 143 887.3 0 143 86 188 887.3 0 188 87 127 887.3 0 127 88 121 887.3 0 121 89 59 887.3 0 59 90 56 887.3 0 56 91 42 887.3 0 42 92 53 887.3 0 53 93 37 887.3 0 37 94 94 887.3 0 94 95 49 887.3 0 49 96 43 887.3 0 43 97 73 887.3 0 73 98 89 887.3 0 89 99 54 887.3 0 54 100 54 887.3 0 54 101 48 887.3 0 48 102 44 887.3 0 44 103 40 887.3 0 40 104 35 887.3 0 35 105 34 887.3 0 34 106 47 887.3 0 47 107 31 887.3 0 31 108 40 887.3 0 40 109 41 887.3 0 41 110 31 887.3 0 31 111 48 887.3 0 48 112 82 887.3 0 82 113 69 887.3 0 69 114 57 887.3 0 57 115 65 887.3 0 65 116 47 887.3 0 47 117 44 887.3 0 44 118 50 887.3 0 50 119 52 887.3 0 52 120 61 887.3 0 61 121 59 887.3 0 59 122 65 887.3 0 65 123 176 887.3 0 176 124 164 887.3 0 164 125 166 887.3 0 166 126 183 887.3 0 183 127 251 887.3 0 251 128 392 887.3 0 392 129 844 887.3 0 844 130 414 887.3 0 414 131 319 887.3 0 319 132 154 887.3 0 154 133 98 887.3 0 98 134 176 887.3 0 176 135 181 887.3 0 181 136 149 887.3 0 149 137 45 887.3 0 45 138 91 887.3 0 91 139 75 887.3 0 75 140 63 887.3 0 63 141 71 887.3 0 71 142 69 887.3 0 69 143 66 887.3 0 66 144 130 887.3 0 130 145 541 887.3 0 541 146 87 887.3 0 87 147 50 887.3 0 50 148 86 887.3 0 86 149 96 887.3 0 96 150 79 887.3 0 79 151 90 887.3 0 90 152 91 887.3 0 91 153 57 887.3 0 57 154 73 887.3 0 73 155 72 887.3 0 72 156 147 887.3 0 147 157 133 887.3 0 133 158 95 887.3 0 95 159 68 887.3 0 68 160 69 887.3 0 69 161 59 887.3 0 59 162 53 887.3 0 53 163 59 887.3 0 59 164 56 887.3 0 56 165 75 887.3 0 75 166 212 887.3 0 212 167 119 887.3 0 119 168 181 887.3 0 181 169 51 887.3 0 51 170 55 887.3 0 55 171 54 887.3 0 54 172 79 887.3 0 79 173 66 887.3 0 66 174 108 887.3 0 108 175 87 887.3 0 87 176 96 887.3 0 96 177 59 887.3 0 59 178 70 887.3 0 70 179 68 887.3 0 68 180 54 887.3 0 54 181 58 887.3 0 58 182 79 887.3 0 79 183 86 887.3 0 86 184 100 887.3 0 100 185 99 887.3 0 99 186 86 887.3 0 86 187 109 887.3 0 109 188 74 887.3 0 74 189 72 887.3 0 72 190 88 887.3 0 88 191 110 887.3 0 110 192 130 887.3 0 130 193 120 887.3 0 120 194 173 887.3 0 173 195 304 887.3 0 304 196 1265 887.3 0 1265 197 2053 887.3 0 2053 198 2580 887.3 0 2580 199 2601 887.3 0 2601 200 180 887.3 0 180 201 92 887.3 0 92 202 87 887.3 0 87 203 68 887.3 0 68 204 76 887.3 0 76 205 64 887.3 0 64 206 70 887.3 0 70 207 111 887.3 0 111 208 113 887.3 0 113 209 79 887.3 0 79 210 127 887.3 0 127 211 314 887.3 0 314 212 175 887.3 0 175 213 156 887.3 0 156 214 100 887.3 0 100 215 114 887.3 0 114 216 74 887.3 0 74 217 75 887.3 0 75 218 122 887.3 0 122 219 241 887.3 0 241 220 331 887.3 0 331 221 309 887.3 0 309 222 247 887.3 0 247 223 168 887.3 0 168 224 304 887.3 0 304 225 116 887.3 0 116 226 107 887.3 0 107 227 135 887.3 0 135 228 63 887.3 0 63 229 63 887.3 0 63 230 52 887.3 0 52 231 78 887.3 0 78 232 97 887.3 0 97 233 100 887.3 0 100 234 66 887.3 0 66 235 89 887.3 0 89 236 86 887.3 0 86 237 97 887.3 0 97 238 240 887.3 0 240 239 225 887.3 0 225 240 356 887.3 0 356 241 326 887.3 0 326 242 262 887.3 0 262 243 143 887.3 0 143 244 164 887.3 0 164 245 998 887.3 0 998 246 746 887.3 0 746 247 856 887.3 0 856 248 195 887.3 0 195 249 200 887.3 0 200 250 169 887.3 0 169 251 108 887.3 0 108 252 67 887.3 0 67 253 70 887.3 0 70 254 199 887.3 0 199 255 190 887.3 0 190 256 131 887.3 0 131 257 74 887.3 0 74 258 87 887.3 0 87 259 109 887.3 0 109 260 147 887.3 0 147 261 138 887.3 0 138 262 428 887.3 0 428 263 1430 887.3 0 1430 264 392 887.3 0 392 265 88 887.3 0 88 266 113 887.3 0 113 267 435 887.3 0 435 268 737 887.3 0 737 269 637 887.3 0 637 270 263 887.3 0 263 271 62 887.3 0 62 272 137 887.3 0 137 273 286 887.3 0 286 274 299 887.3 0 299 275 257 887.3 0 257 276 178 887.3 0 178 277 95 887.3 0 95 278 57 887.3 0 57 279 81 887.3 0 81 280 88 887.3 0 88 281 161 887.3 0 161 282 160 887.3 0 160 283 126 887.3 0 126 284 57 887.3 0 57 285 66 887.3 0 66 286 66 887.3 0 66 287 86 887.3 0 86 288 149 887.3 0 149 289 158 887.3 0 158 290 112 887.3 0 112 291 75 887.3 0 75 292 83 887.3 0 83 293 56 887.3 0 56 294 100 887.3 0 100 295 91 887.3 0 91 296 103 887.3 0 103 297 91 887.3 0 91 298 63 887.3 0 63 299 107 887.3 0 107 300 111 887.3 0 111 301 63 887.3 0 63 Finished in 15.90 s (74 us/read; 0.81 M reads/minute). === Summary === Total reads processed: 214,340 Reads with adapters: 99,556 (46.4%) Reads that were too short: 79 (0.0%) Reads written (passing filters): 99,477 (46.4%) Total basepairs processed: 59,340,364 bp Total written (filtered): 27,537,217 bp (46.4%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 99556 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 12 0.0 2 0 0 0 12 15 46 0.0 3 0 0 37 9 16 919 0.0 3 0 795 75 49 17 97729 0.0 3 92749 4112 709 159 18 236 0.0 3 18 193 17 8 19 244 0.0 3 2 1 160 81 20 169 0.0 3 0 0 0 169 21 1 0.0 3 0 0 0 1 22 2 0.0 3 1 0 1 23 2 0.0 3 0 0 0 2 24 2 0.0 3 0 0 0 2 29 1 0.0 3 1 38 2 0.0 3 0 0 0 2 42 29 0.0 3 0 0 0 29 45 10 0.0 3 0 0 1 9 49 1 0.0 3 0 0 0 1 51 1 0.0 3 0 0 0 1 52 2 0.0 3 0 0 0 2 53 1 0.0 3 0 0 0 1 55 2 0.0 3 0 0 0 2 56 1 0.0 3 0 0 0 1 58 1 0.0 3 0 0 0 1 61 3 0.0 3 0 0 0 3 63 25 0.0 3 0 0 0 25 64 3 0.0 3 0 0 0 3 65 3 0.0 3 0 0 0 3 66 5 0.0 3 0 0 0 5 68 4 0.0 3 0 0 0 4 69 2 0.0 3 0 0 0 2 75 1 0.0 3 0 0 0 1 89 3 0.0 3 0 0 0 3 93 2 0.0 3 0 0 0 2 103 1 0.0 3 0 0 0 1 111 1 0.0 3 0 0 0 1 114 1 0.0 3 0 0 0 1 117 1 0.0 3 0 0 0 1 124 1 0.0 3 0 0 0 1 129 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 134 1 0.0 3 0 0 0 1 137 1 0.0 3 0 0 0 1 139 1 0.0 3 0 0 0 1 140 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 143 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 147 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 149 1 0.0 3 0 0 0 1 154 1 0.0 3 0 0 0 1 155 1 0.0 3 0 0 0 1 156 1 0.0 3 0 0 0 1 157 1 0.0 3 0 0 0 1 159 1 0.0 3 0 0 0 1 160 1 0.0 3 0 0 0 1 164 6 0.0 3 0 0 0 6 166 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 170 1 0.0 3 0 0 0 1 171 1 0.0 3 0 0 0 1 172 3 0.0 3 0 0 0 3 175 1 0.0 3 0 0 0 1 177 1 0.0 3 0 0 0 1 182 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 185 1 0.0 3 0 0 0 1 187 2 0.0 3 0 0 1 1 189 1 0.0 3 0 0 0 1 190 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 194 1 0.0 3 0 0 0 1 199 1 0.0 3 0 0 0 1 201 2 0.0 3 0 0 0 2 208 1 0.0 3 0 0 0 1 210 1 0.0 3 0 0 0 1 217 1 0.0 3 0 0 0 1 221 7 0.0 3 0 0 0 7 226 1 0.0 3 0 0 0 1 240 1 0.0 3 0 0 0 1 249 1 0.0 3 0 0 0 1 257 1 0.0 3 0 0 0 1 270 1 0.0 3 0 0 0 1 271 1 0.0 3 0 0 0 1 277 1 0.0 3 0 0 0 1 279 7 0.0 3 0 0 0 7 280 1 0.0 3 0 0 0 1 281 9 0.0 3 0 0 0 9 282 2 0.0 3 0 0 0 2 283 2 0.0 3 0 0 0 2 285 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 5.81 s (58 us/read; 1.03 M reads/minute). === Summary === Total reads processed: 99,477 Reads with adapters: 574 (0.6%) Reads written (passing filters): 99,477 (100.0%) Total basepairs processed: 27,537,217 bp Total written (filtered): 27,535,421 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 574 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 16.9% C: 41.1% G: 36.4% T: 5.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 533 1554.3 0 533 4 27 388.6 0 27 5 8 97.1 0 8 6 4 24.3 0 4 12 1 0.0 1 0 1 13 1 0.0 1 0 1