This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TCCAGC -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 171.11 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 468,760 (13.5%) Reads that were too short: 11,939 (0.3%) Reads written (passing filters): 456,821 (13.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 109,235,520 bp (10.5%) === Adapter 1 === Sequence: TCCAGC; Type: regular 5'; Length: 6; Trimmed: 468760 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1689 847.3 0 1689 7 2408 847.3 0 2408 8 62287 847.3 0 62287 9 64595 847.3 0 64595 10 94 847.3 0 94 11 73 847.3 0 73 12 90 847.3 0 90 13 65 847.3 0 65 14 61 847.3 0 61 15 56 847.3 0 56 16 41 847.3 0 41 17 62 847.3 0 62 18 80 847.3 0 80 19 78 847.3 0 78 20 100 847.3 0 100 21 56 847.3 0 56 22 79 847.3 0 79 23 123 847.3 0 123 24 96 847.3 0 96 25 53 847.3 0 53 26 75 847.3 0 75 27 80 847.3 0 80 28 80 847.3 0 80 29 259 847.3 0 259 30 286 847.3 0 286 31 76 847.3 0 76 32 95 847.3 0 95 33 82 847.3 0 82 34 82 847.3 0 82 35 65 847.3 0 65 36 160 847.3 0 160 37 131 847.3 0 131 38 268 847.3 0 268 39 163 847.3 0 163 40 131 847.3 0 131 41 83 847.3 0 83 42 266 847.3 0 266 43 137 847.3 0 137 44 221 847.3 0 221 45 305 847.3 0 305 46 386 847.3 0 386 47 589 847.3 0 589 48 1218 847.3 0 1218 49 2142 847.3 0 2142 50 498 847.3 0 498 51 592 847.3 0 592 52 965 847.3 0 965 53 659 847.3 0 659 54 605 847.3 0 605 55 1175 847.3 0 1175 56 915 847.3 0 915 57 1154 847.3 0 1154 58 1041 847.3 0 1041 59 2184 847.3 0 2184 60 2389 847.3 0 2389 61 4590 847.3 0 4590 62 118350 847.3 0 118350 63 64748 847.3 0 64748 64 35327 847.3 0 35327 65 618 847.3 0 618 66 79 847.3 0 79 67 73 847.3 0 73 68 80 847.3 0 80 69 72 847.3 0 72 70 93 847.3 0 93 71 191 847.3 0 191 72 204 847.3 0 204 73 284 847.3 0 284 74 157 847.3 0 157 75 139 847.3 0 139 76 1066 847.3 0 1066 77 2549 847.3 0 2549 78 3084 847.3 0 3084 79 228 847.3 0 228 80 143 847.3 0 143 81 57 847.3 0 57 82 73 847.3 0 73 83 64 847.3 0 64 84 54 847.3 0 54 85 71 847.3 0 71 86 67 847.3 0 67 87 49 847.3 0 49 88 45 847.3 0 45 89 53 847.3 0 53 90 72 847.3 0 72 91 68 847.3 0 68 92 76 847.3 0 76 93 87 847.3 0 87 94 69 847.3 0 69 95 100 847.3 0 100 96 53 847.3 0 53 97 51 847.3 0 51 98 231 847.3 0 231 99 165 847.3 0 165 100 305 847.3 0 305 101 62 847.3 0 62 102 65 847.3 0 65 103 81 847.3 0 81 104 73 847.3 0 73 105 77 847.3 0 77 106 77 847.3 0 77 107 139 847.3 0 139 108 264 847.3 0 264 109 317 847.3 0 317 110 99 847.3 0 99 111 107 847.3 0 107 112 137 847.3 0 137 113 75 847.3 0 75 114 68 847.3 0 68 115 76 847.3 0 76 116 69 847.3 0 69 117 93 847.3 0 93 118 83 847.3 0 83 119 80 847.3 0 80 120 68 847.3 0 68 121 74 847.3 0 74 122 68 847.3 0 68 123 68 847.3 0 68 124 95 847.3 0 95 125 84 847.3 0 84 126 112 847.3 0 112 127 194 847.3 0 194 128 112 847.3 0 112 129 131 847.3 0 131 130 104 847.3 0 104 131 76 847.3 0 76 132 117 847.3 0 117 133 103 847.3 0 103 134 113 847.3 0 113 135 96 847.3 0 96 136 80 847.3 0 80 137 173 847.3 0 173 138 116 847.3 0 116 139 134 847.3 0 134 140 155 847.3 0 155 141 230 847.3 0 230 142 349 847.3 0 349 143 381 847.3 0 381 144 4113 847.3 0 4113 145 3786 847.3 0 3786 146 7993 847.3 0 7993 147 316 847.3 0 316 148 138 847.3 0 138 149 166 847.3 0 166 150 123 847.3 0 123 151 155 847.3 0 155 152 318 847.3 0 318 153 220 847.3 0 220 154 241 847.3 0 241 155 143 847.3 0 143 156 883 847.3 0 883 157 904 847.3 0 904 158 2120 847.3 0 2120 159 280 847.3 0 280 160 323 847.3 0 323 161 289 847.3 0 289 162 515 847.3 0 515 163 687 847.3 0 687 164 7426 847.3 0 7426 165 8156 847.3 0 8156 166 16910 847.3 0 16910 167 207 847.3 0 207 168 149 847.3 0 149 169 363 847.3 0 363 170 673 847.3 0 673 171 1146 847.3 0 1146 172 582 847.3 0 582 173 371 847.3 0 371 174 582 847.3 0 582 175 219 847.3 0 219 176 63 847.3 0 63 177 83 847.3 0 83 178 101 847.3 0 101 179 171 847.3 0 171 180 497 847.3 0 497 181 226 847.3 0 226 182 101 847.3 0 101 183 135 847.3 0 135 184 119 847.3 0 119 185 116 847.3 0 116 186 98 847.3 0 98 187 123 847.3 0 123 188 92 847.3 0 92 189 490 847.3 0 490 190 1072 847.3 0 1072 191 692 847.3 0 692 192 555 847.3 0 555 193 89 847.3 0 89 194 72 847.3 0 72 195 67 847.3 0 67 196 68 847.3 0 68 197 77 847.3 0 77 198 88 847.3 0 88 199 94 847.3 0 94 200 77 847.3 0 77 201 55 847.3 0 55 202 76 847.3 0 76 203 92 847.3 0 92 204 72 847.3 0 72 205 67 847.3 0 67 206 104 847.3 0 104 207 65 847.3 0 65 208 74 847.3 0 74 209 94 847.3 0 94 210 60 847.3 0 60 211 53 847.3 0 53 212 80 847.3 0 80 213 92 847.3 0 92 214 82 847.3 0 82 215 102 847.3 0 102 216 149 847.3 0 149 217 155 847.3 0 155 218 152 847.3 0 152 219 87 847.3 0 87 220 57 847.3 0 57 221 75 847.3 0 75 222 62 847.3 0 62 223 75 847.3 0 75 224 96 847.3 0 96 225 81 847.3 0 81 226 198 847.3 0 198 227 178 847.3 0 178 228 174 847.3 0 174 229 254 847.3 0 254 230 175 847.3 0 175 231 434 847.3 0 434 232 95 847.3 0 95 233 67 847.3 0 67 234 64 847.3 0 64 235 64 847.3 0 64 236 96 847.3 0 96 237 73 847.3 0 73 238 112 847.3 0 112 239 79 847.3 0 79 240 88 847.3 0 88 241 75 847.3 0 75 242 60 847.3 0 60 243 96 847.3 0 96 244 112 847.3 0 112 245 81 847.3 0 81 246 74 847.3 0 74 247 87 847.3 0 87 248 126 847.3 0 126 249 96 847.3 0 96 250 62 847.3 0 62 251 53 847.3 0 53 252 69 847.3 0 69 253 72 847.3 0 72 254 97 847.3 0 97 255 65 847.3 0 65 256 69 847.3 0 69 257 66 847.3 0 66 258 49 847.3 0 49 259 91 847.3 0 91 260 132 847.3 0 132 261 177 847.3 0 177 262 210 847.3 0 210 263 157 847.3 0 157 264 86 847.3 0 86 265 114 847.3 0 114 266 116 847.3 0 116 267 133 847.3 0 133 268 108 847.3 0 108 269 84 847.3 0 84 270 66 847.3 0 66 271 81 847.3 0 81 272 96 847.3 0 96 273 96 847.3 0 96 274 103 847.3 0 103 275 294 847.3 0 294 276 81 847.3 0 81 277 297 847.3 0 297 278 194 847.3 0 194 279 207 847.3 0 207 280 101 847.3 0 101 281 164 847.3 0 164 282 200 847.3 0 200 283 77 847.3 0 77 284 73 847.3 0 73 285 139 847.3 0 139 286 180 847.3 0 180 287 359 847.3 0 359 288 406 847.3 0 406 289 383 847.3 0 383 290 298 847.3 0 298 291 90 847.3 0 90 292 109 847.3 0 109 293 87 847.3 0 87 294 55 847.3 0 55 295 142 847.3 0 142 296 76 847.3 0 76 297 83 847.3 0 83 298 80 847.3 0 80 299 101 847.3 0 101 300 77 847.3 0 77 301 74 847.3 0 74 Finished in 31.99 s (70 us/read; 0.86 M reads/minute). === Summary === Total reads processed: 456,821 Reads with adapters: 79,793 (17.5%) Reads that were too short: 116 (0.0%) Reads written (passing filters): 79,677 (17.4%) Total basepairs processed: 109,235,520 bp Total written (filtered): 20,525,506 bp (18.8%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 79793 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 17 2 0.0 3 0 0 0 1 1 18 28 0.0 3 0 0 28 19 759 0.0 3 0 738 15 3 3 20 67733 0.0 4 66536 1142 52 3 21 129 0.0 4 19 105 4 1 22 7 0.0 4 1 0 5 1 23 41 0.0 4 3 0 0 33 5 24 4 0.0 4 1 0 0 0 3 25 1 0.0 4 0 1 26 1 0.0 4 0 0 0 0 1 27 1 0.0 4 0 1 30 1 0.0 4 1 34 13 0.0 4 0 0 0 0 13 37 1 0.0 4 0 0 0 0 1 39 1 0.0 4 1 69 4 0.0 4 0 0 0 0 4 70 14 0.0 4 0 0 0 0 14 71 8 0.0 4 0 0 0 0 8 72 10724 0.0 4 0 0 0 0 10724 73 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 75 8 0.0 4 0 0 0 0 8 82 1 0.0 4 1 85 2 0.0 4 0 0 0 0 2 98 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 102 3 0.0 4 0 0 0 0 3 115 1 0.0 4 0 0 0 1 119 1 0.0 4 0 1 125 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 180 0.0 4 0 0 0 0 180 129 1 0.0 4 0 0 0 0 1 138 1 0.0 4 1 147 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 162 1 0.0 4 1 166 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 0 0 0 1 173 42 0.0 4 0 0 0 1 41 174 12 0.0 4 0 0 0 0 12 175 1 0.0 4 0 0 0 0 1 179 3 0.0 4 0 0 0 0 3 180 3 0.0 4 0 0 0 1 2 181 6 0.0 4 0 0 0 0 6 190 1 0.0 4 0 0 0 0 1 199 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 222 1 0.0 4 0 0 0 0 1 227 9 0.0 4 0 0 0 0 9 228 7 0.0 4 0 0 0 1 6 229 2 0.0 4 0 0 0 0 2 230 3 0.0 4 0 0 0 0 3 231 1 0.0 4 0 0 0 0 1 233 5 0.0 4 0 0 0 0 5 234 1 0.0 4 0 0 0 1 237 1 0.0 4 0 0 0 0 1 243 1 0.0 4 0 0 0 0 1 271 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 293 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 4.86 s (61 us/read; 0.98 M reads/minute). === Summary === Total reads processed: 79,677 Reads with adapters: 18,136 (22.8%) Reads written (passing filters): 79,677 (100.0%) Total basepairs processed: 20,525,506 bp Total written (filtered): 20,357,453 bp (99.2%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 18136 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.1% C: 1.7% G: 96.3% T: 0.8% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 55 1245.0 0 55 4 66 311.2 0 66 5 8 77.8 0 8 6 5 19.5 0 5 8 2 1.2 0 2 9 14839 0.3 0 329 14510 10 2767 0.1 1 89 2678 11 338 0.0 1 7 331 12 15 0.0 1 0 15 13 4 0.0 1 0 4 18 24 0.0 1 20 4 19 1 0.0 1 1 20 1 0.0 1 1 149 1 0.0 1 0 1 150 6 0.0 1 0 6 208 3 0.0 1 0 3 223 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.