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 ... 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 177.45 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 592,990 (16.3%) Reads that were too short: 23,123 (0.6%) Reads written (passing filters): 569,867 (15.7%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 142,721,722 bp (13.0%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 592990 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1580 887.3 0 1580 7 58122 887.3 0 58122 8 63935 887.3 0 63935 9 293 887.3 0 293 10 214 887.3 0 214 11 183 887.3 0 183 12 174 887.3 0 174 13 336 887.3 0 336 14 403 887.3 0 403 15 349 887.3 0 349 16 321 887.3 0 321 17 682 887.3 0 682 18 705 887.3 0 705 19 1470 887.3 0 1470 20 38007 887.3 0 38007 21 33494 887.3 0 33494 22 29736 887.3 0 29736 23 341 887.3 0 341 24 188 887.3 0 188 25 448 887.3 0 448 26 185 887.3 0 185 27 119 887.3 0 119 28 106 887.3 0 106 29 155 887.3 0 155 30 116 887.3 0 116 31 169 887.3 0 169 32 214 887.3 0 214 33 263 887.3 0 263 34 249 887.3 0 249 35 498 887.3 0 498 36 1304 887.3 0 1304 37 346 887.3 0 346 38 425 887.3 0 425 39 850 887.3 0 850 40 399 887.3 0 399 41 487 887.3 0 487 42 846 887.3 0 846 43 936 887.3 0 936 44 958 887.3 0 958 45 894 887.3 0 894 46 1665 887.3 0 1665 47 1820 887.3 0 1820 48 4258 887.3 0 4258 49 89943 887.3 0 89943 50 98217 887.3 0 98217 51 64401 887.3 0 64401 52 262 887.3 0 262 53 51 887.3 0 51 54 53 887.3 0 53 55 53 887.3 0 53 56 55 887.3 0 55 57 68 887.3 0 68 58 80 887.3 0 80 59 63 887.3 0 63 60 75 887.3 0 75 61 74 887.3 0 74 62 85 887.3 0 85 63 291 887.3 0 291 64 410 887.3 0 410 65 482 887.3 0 482 66 55 887.3 0 55 67 60 887.3 0 60 68 46 887.3 0 46 69 46 887.3 0 46 70 60 887.3 0 60 71 55 887.3 0 55 72 53 887.3 0 53 73 91 887.3 0 91 74 87 887.3 0 87 75 52 887.3 0 52 76 59 887.3 0 59 77 44 887.3 0 44 78 58 887.3 0 58 79 56 887.3 0 56 80 53 887.3 0 53 81 57 887.3 0 57 82 62 887.3 0 62 83 57 887.3 0 57 84 64 887.3 0 64 85 42 887.3 0 42 86 58 887.3 0 58 87 64 887.3 0 64 88 77 887.3 0 77 89 68 887.3 0 68 90 92 887.3 0 92 91 61 887.3 0 61 92 70 887.3 0 70 93 77 887.3 0 77 94 57 887.3 0 57 95 51 887.3 0 51 96 48 887.3 0 48 97 50 887.3 0 50 98 90 887.3 0 90 99 54 887.3 0 54 100 47 887.3 0 47 101 49 887.3 0 49 102 67 887.3 0 67 103 33 887.3 0 33 104 53 887.3 0 53 105 57 887.3 0 57 106 89 887.3 0 89 107 70 887.3 0 70 108 44 887.3 0 44 109 54 887.3 0 54 110 77 887.3 0 77 111 53 887.3 0 53 112 75 887.3 0 75 113 52 887.3 0 52 114 49 887.3 0 49 115 45 887.3 0 45 116 89 887.3 0 89 117 136 887.3 0 136 118 308 887.3 0 308 119 323 887.3 0 323 120 65 887.3 0 65 121 56 887.3 0 56 122 63 887.3 0 63 123 58 887.3 0 58 124 69 887.3 0 69 125 96 887.3 0 96 126 249 887.3 0 249 127 88 887.3 0 88 128 69 887.3 0 69 129 72 887.3 0 72 130 192 887.3 0 192 131 102 887.3 0 102 132 61 887.3 0 61 133 76 887.3 0 76 134 56 887.3 0 56 135 95 887.3 0 95 136 60 887.3 0 60 137 61 887.3 0 61 138 64 887.3 0 64 139 65 887.3 0 65 140 59 887.3 0 59 141 87 887.3 0 87 142 85 887.3 0 85 143 69 887.3 0 69 144 83 887.3 0 83 145 72 887.3 0 72 146 93 887.3 0 93 147 87 887.3 0 87 148 65 887.3 0 65 149 77 887.3 0 77 150 70 887.3 0 70 151 82 887.3 0 82 152 91 887.3 0 91 153 77 887.3 0 77 154 80 887.3 0 80 155 107 887.3 0 107 156 68 887.3 0 68 157 100 887.3 0 100 158 103 887.3 0 103 159 90 887.3 0 90 160 65 887.3 0 65 161 63 887.3 0 63 162 70 887.3 0 70 163 60 887.3 0 60 164 71 887.3 0 71 165 110 887.3 0 110 166 59 887.3 0 59 167 77 887.3 0 77 168 75 887.3 0 75 169 89 887.3 0 89 170 99 887.3 0 99 171 88 887.3 0 88 172 74 887.3 0 74 173 79 887.3 0 79 174 85 887.3 0 85 175 124 887.3 0 124 176 119 887.3 0 119 177 144 887.3 0 144 178 191 887.3 0 191 179 260 887.3 0 260 180 344 887.3 0 344 181 367 887.3 0 367 182 3855 887.3 0 3855 183 10566 887.3 0 10566 184 4428 887.3 0 4428 185 141 887.3 0 141 186 141 887.3 0 141 187 121 887.3 0 121 188 211 887.3 0 211 189 245 887.3 0 245 190 268 887.3 0 268 191 293 887.3 0 293 192 507 887.3 0 507 193 7491 887.3 0 7491 194 5982 887.3 0 5982 195 13532 887.3 0 13532 196 5142 887.3 0 5142 197 3148 887.3 0 3148 198 751 887.3 0 751 199 74 887.3 0 74 200 78 887.3 0 78 201 68 887.3 0 68 202 62 887.3 0 62 203 70 887.3 0 70 204 80 887.3 0 80 205 116 887.3 0 116 206 75 887.3 0 75 207 82 887.3 0 82 208 80 887.3 0 80 209 70 887.3 0 70 210 73 887.3 0 73 211 87 887.3 0 87 212 56 887.3 0 56 213 242 887.3 0 242 214 453 887.3 0 453 215 381 887.3 0 381 216 403 887.3 0 403 217 265 887.3 0 265 218 331 887.3 0 331 219 495 887.3 0 495 220 446 887.3 0 446 221 354 887.3 0 354 222 201 887.3 0 201 223 95 887.3 0 95 224 66 887.3 0 66 225 75 887.3 0 75 226 67 887.3 0 67 227 110 887.3 0 110 228 74 887.3 0 74 229 55 887.3 0 55 230 87 887.3 0 87 231 83 887.3 0 83 232 132 887.3 0 132 233 88 887.3 0 88 234 84 887.3 0 84 235 78 887.3 0 78 236 117 887.3 0 117 237 93 887.3 0 93 238 119 887.3 0 119 239 375 887.3 0 375 240 724 887.3 0 724 241 490 887.3 0 490 242 224 887.3 0 224 243 53 887.3 0 53 244 68 887.3 0 68 245 70 887.3 0 70 246 94 887.3 0 94 247 96 887.3 0 96 248 103 887.3 0 103 249 132 887.3 0 132 250 614 887.3 0 614 251 943 887.3 0 943 252 1007 887.3 0 1007 253 458 887.3 0 458 254 57 887.3 0 57 255 97 887.3 0 97 256 82 887.3 0 82 257 131 887.3 0 131 258 123 887.3 0 123 259 382 887.3 0 382 260 300 887.3 0 300 261 208 887.3 0 208 262 116 887.3 0 116 263 447 887.3 0 447 264 412 887.3 0 412 265 445 887.3 0 445 266 352 887.3 0 352 267 408 887.3 0 408 268 169 887.3 0 169 269 155 887.3 0 155 270 150 887.3 0 150 271 83 887.3 0 83 272 104 887.3 0 104 273 81 887.3 0 81 274 83 887.3 0 83 275 83 887.3 0 83 276 98 887.3 0 98 277 75 887.3 0 75 278 94 887.3 0 94 279 87 887.3 0 87 280 82 887.3 0 82 281 64 887.3 0 64 282 112 887.3 0 112 283 133 887.3 0 133 284 127 887.3 0 127 285 129 887.3 0 129 286 135 887.3 0 135 287 147 887.3 0 147 288 1197 887.3 0 1197 289 1625 887.3 0 1625 290 1297 887.3 0 1297 291 481 887.3 0 481 292 84 887.3 0 84 293 112 887.3 0 112 294 161 887.3 0 161 295 111 887.3 0 111 296 85 887.3 0 85 297 114 887.3 0 114 298 113 887.3 0 113 299 110 887.3 0 110 300 390 887.3 0 390 301 196 887.3 0 196 Finished in 40.79 s (72 us/read; 0.84 M reads/minute). === Summary === Total reads processed: 569,867 Reads with adapters: 85,285 (15.0%) Reads that were too short: 137 (0.0%) Reads written (passing filters): 85,148 (14.9%) Total basepairs processed: 142,721,722 bp Total written (filtered): 21,301,515 bp (14.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 85285 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 18 12 0.0 3 0 0 12 19 724 0.0 3 0 706 14 2 2 20 65909 0.0 4 64829 1048 28 3 1 21 146 0.0 4 24 120 1 1 22 5 0.0 4 0 0 3 0 2 23 28 0.0 4 1 0 0 22 5 24 2 0.0 4 0 0 0 0 2 26 1 0.0 4 0 0 0 1 50 2 0.0 4 0 0 0 0 2 56 1 0.0 4 1 62 1 0.0 4 1 79 1 0.0 4 0 0 0 0 1 81 2 0.0 4 0 0 0 0 2 82 1 0.0 4 0 0 0 0 1 83 12 0.0 4 0 0 0 0 12 84 10 0.0 4 1 0 0 0 9 85 11528 0.0 4 0 0 0 0 11528 86 1 0.0 4 0 0 0 0 1 88 11 0.0 4 0 0 0 0 11 89 1 0.0 4 0 1 94 1 0.0 4 0 0 0 0 1 97 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 1 0 0 1 112 2 0.0 4 0 0 0 0 2 113 4 0.0 4 0 0 0 0 4 114 1939 0.0 4 0 0 0 0 1939 122 6 0.0 4 0 0 0 0 6 123 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 10 0.0 4 0 0 0 0 10 126 45 0.0 4 0 0 0 0 45 127 4667 0.0 4 0 0 0 0 4667 128 62 0.0 4 0 0 0 0 62 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 132 1 0.0 4 1 139 2 0.0 4 0 0 0 0 2 140 2 0.0 4 0 0 0 0 2 153 3 0.0 4 0 0 0 0 3 160 2 0.0 4 0 0 0 0 2 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 186 28 0.0 4 0 0 0 0 28 187 9 0.0 4 0 0 0 0 9 190 2 0.0 4 1 0 0 0 1 192 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 1 203 1 0.0 4 0 0 0 0 1 204 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 215 12 0.0 4 0 0 0 0 12 216 9 0.0 4 0 0 0 1 8 218 5 0.0 4 0 0 0 1 4 220 3 0.0 4 0 0 0 1 2 221 1 0.0 4 0 0 0 0 1 222 5 0.0 4 0 0 0 0 5 223 3 0.0 4 0 0 0 0 3 225 2 0.0 4 0 0 0 0 2 228 10 0.0 4 0 0 0 0 10 229 3 0.0 4 0 0 0 1 2 231 1 0.0 4 0 0 0 0 1 233 2 0.0 4 0 0 0 0 2 240 4 0.0 4 0 0 0 0 4 241 3 0.0 4 0 0 0 0 3 243 2 0.0 4 0 0 0 0 2 246 1 0.0 4 0 0 0 0 1 247 1 0.0 4 0 0 0 0 1 248 2 0.0 4 0 0 0 0 2 249 1 0.0 4 0 0 0 0 1 250 2 0.0 4 0 0 0 1 1 252 1 0.0 4 0 0 0 0 1 254 2 0.0 4 0 0 0 0 2 257 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 280 1 0.0 4 0 0 0 0 1 281 1 0.0 4 0 0 0 0 1 283 4 0.0 4 0 0 0 0 4 293 2 0.0 4 0 0 0 0 2 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 4.50 s (53 us/read; 1.14 M reads/minute). === Summary === Total reads processed: 85,148 Reads with adapters: 5,879 (6.9%) Reads written (passing filters): 85,148 (100.0%) Total basepairs processed: 21,301,515 bp Total written (filtered): 21,231,666 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5879 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.0% C: 3.0% G: 92.3% T: 1.7% 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 98 1330.4 0 98 4 74 332.6 0 74 5 3 83.2 0 3 6 2 20.8 0 2 8 1 1.3 0 1 9 30 0.3 0 0 30 10 430 0.1 1 9 421 11 5190 0.0 1 22 5168 12 6 0.0 1 0 6 13 3 0.0 1 0 3 14 7 0.0 1 4 3 15 1 0.0 1 0 1 115 1 0.0 1 1 123 1 0.0 1 1 170 1 0.0 1 1 209 1 0.0 1 1 224 27 0.0 1 25 2 225 3 0.0 1 2 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.