This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GTATGT -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 136.55 s (46 us/read; 1.30 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 186,287 (6.3%) Reads that were too short: 21,197 (0.7%) Reads written (passing filters): 165,090 (5.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 43,737,084 bp (4.9%) === Adapter 1 === Sequence: GTATGT; Type: regular 5'; Length: 6; Trimmed: 186287 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3039 720.2 0 3039 7 1263 720.2 0 1263 8 69971 720.2 0 69971 9 54025 720.2 0 54025 10 90 720.2 0 90 11 56 720.2 0 56 12 52 720.2 0 52 13 53 720.2 0 53 14 53 720.2 0 53 15 47 720.2 0 47 16 44 720.2 0 44 17 56 720.2 0 56 18 54 720.2 0 54 19 52 720.2 0 52 20 45 720.2 0 45 21 41 720.2 0 41 22 52 720.2 0 52 23 37 720.2 0 37 24 196 720.2 0 196 25 80 720.2 0 80 26 74 720.2 0 74 27 62 720.2 0 62 28 52 720.2 0 52 29 58 720.2 0 58 30 51 720.2 0 51 31 64 720.2 0 64 32 34 720.2 0 34 33 39 720.2 0 39 34 64 720.2 0 64 35 59 720.2 0 59 36 109 720.2 0 109 37 46 720.2 0 46 38 63 720.2 0 63 39 57 720.2 0 57 40 49 720.2 0 49 41 30 720.2 0 30 42 42 720.2 0 42 43 67 720.2 0 67 44 46 720.2 0 46 45 40 720.2 0 40 46 59 720.2 0 59 47 39 720.2 0 39 48 42 720.2 0 42 49 52 720.2 0 52 50 49 720.2 0 49 51 55 720.2 0 55 52 52 720.2 0 52 53 50 720.2 0 50 54 54 720.2 0 54 55 56 720.2 0 56 56 37 720.2 0 37 57 49 720.2 0 49 58 52 720.2 0 52 59 35 720.2 0 35 60 43 720.2 0 43 61 41 720.2 0 41 62 34 720.2 0 34 63 48 720.2 0 48 64 53 720.2 0 53 65 84 720.2 0 84 66 53 720.2 0 53 67 127 720.2 0 127 68 56 720.2 0 56 69 120 720.2 0 120 70 102 720.2 0 102 71 125 720.2 0 125 72 74 720.2 0 74 73 62 720.2 0 62 74 47 720.2 0 47 75 65 720.2 0 65 76 117 720.2 0 117 77 121 720.2 0 121 78 214 720.2 0 214 79 111 720.2 0 111 80 594 720.2 0 594 81 433 720.2 0 433 82 1126 720.2 0 1126 83 95 720.2 0 95 84 63 720.2 0 63 85 60 720.2 0 60 86 89 720.2 0 89 87 73 720.2 0 73 88 64 720.2 0 64 89 62 720.2 0 62 90 65 720.2 0 65 91 75 720.2 0 75 92 67 720.2 0 67 93 97 720.2 0 97 94 107 720.2 0 107 95 122 720.2 0 122 96 1580 720.2 0 1580 97 1464 720.2 0 1464 98 1746 720.2 0 1746 99 109 720.2 0 109 100 132 720.2 0 132 101 51 720.2 0 51 102 57 720.2 0 57 103 41 720.2 0 41 104 55 720.2 0 55 105 42 720.2 0 42 106 41 720.2 0 41 107 55 720.2 0 55 108 57 720.2 0 57 109 50 720.2 0 50 110 77 720.2 0 77 111 50 720.2 0 50 112 70 720.2 0 70 113 93 720.2 0 93 114 152 720.2 0 152 115 68 720.2 0 68 116 69 720.2 0 69 117 58 720.2 0 58 118 49 720.2 0 49 119 56 720.2 0 56 120 82 720.2 0 82 121 55 720.2 0 55 122 85 720.2 0 85 123 65 720.2 0 65 124 54 720.2 0 54 125 67 720.2 0 67 126 116 720.2 0 116 127 160 720.2 0 160 128 184 720.2 0 184 129 200 720.2 0 200 130 484 720.2 0 484 131 1040 720.2 0 1040 132 566 720.2 0 566 133 689 720.2 0 689 134 515 720.2 0 515 135 172 720.2 0 172 136 89 720.2 0 89 137 133 720.2 0 133 138 361 720.2 0 361 139 137 720.2 0 137 140 81 720.2 0 81 141 73 720.2 0 73 142 66 720.2 0 66 143 73 720.2 0 73 144 88 720.2 0 88 145 88 720.2 0 88 146 85 720.2 0 85 147 139 720.2 0 139 148 1102 720.2 0 1102 149 2098 720.2 0 2098 150 818 720.2 0 818 151 47 720.2 0 47 152 43 720.2 0 43 153 71 720.2 0 71 154 74 720.2 0 74 155 64 720.2 0 64 156 65 720.2 0 65 157 61 720.2 0 61 158 90 720.2 0 90 159 87 720.2 0 87 160 69 720.2 0 69 161 75 720.2 0 75 162 65 720.2 0 65 163 51 720.2 0 51 164 60 720.2 0 60 165 62 720.2 0 62 166 59 720.2 0 59 167 49 720.2 0 49 168 45 720.2 0 45 169 61 720.2 0 61 170 63 720.2 0 63 171 51 720.2 0 51 172 54 720.2 0 54 173 68 720.2 0 68 174 90 720.2 0 90 175 85 720.2 0 85 176 78 720.2 0 78 177 84 720.2 0 84 178 73 720.2 0 73 179 73 720.2 0 73 180 82 720.2 0 82 181 82 720.2 0 82 182 84 720.2 0 84 183 90 720.2 0 90 184 125 720.2 0 125 185 178 720.2 0 178 186 224 720.2 0 224 187 1355 720.2 0 1355 188 5002 720.2 0 5002 189 2083 720.2 0 2083 190 1004 720.2 0 1004 191 74 720.2 0 74 192 83 720.2 0 83 193 29 720.2 0 29 194 61 720.2 0 61 195 96 720.2 0 96 196 81 720.2 0 81 197 53 720.2 0 53 198 70 720.2 0 70 199 52 720.2 0 52 200 52 720.2 0 52 201 44 720.2 0 44 202 48 720.2 0 48 203 76 720.2 0 76 204 64 720.2 0 64 205 90 720.2 0 90 206 86 720.2 0 86 207 104 720.2 0 104 208 107 720.2 0 107 209 537 720.2 0 537 210 990 720.2 0 990 211 906 720.2 0 906 212 242 720.2 0 242 213 66 720.2 0 66 214 75 720.2 0 75 215 66 720.2 0 66 216 47 720.2 0 47 217 64 720.2 0 64 218 62 720.2 0 62 219 72 720.2 0 72 220 58 720.2 0 58 221 79 720.2 0 79 222 63 720.2 0 63 223 107 720.2 0 107 224 117 720.2 0 117 225 112 720.2 0 112 226 410 720.2 0 410 227 677 720.2 0 677 228 361 720.2 0 361 229 201 720.2 0 201 230 165 720.2 0 165 231 292 720.2 0 292 232 162 720.2 0 162 233 91 720.2 0 91 234 183 720.2 0 183 235 186 720.2 0 186 236 162 720.2 0 162 237 132 720.2 0 132 238 88 720.2 0 88 239 101 720.2 0 101 240 287 720.2 0 287 241 480 720.2 0 480 242 467 720.2 0 467 243 393 720.2 0 393 244 269 720.2 0 269 245 208 720.2 0 208 246 444 720.2 0 444 247 165 720.2 0 165 248 107 720.2 0 107 249 224 720.2 0 224 250 226 720.2 0 226 251 240 720.2 0 240 252 188 720.2 0 188 253 561 720.2 0 561 254 983 720.2 0 983 255 858 720.2 0 858 256 361 720.2 0 361 257 227 720.2 0 227 258 126 720.2 0 126 259 116 720.2 0 116 260 367 720.2 0 367 261 377 720.2 0 377 262 406 720.2 0 406 263 109 720.2 0 109 264 74 720.2 0 74 265 131 720.2 0 131 266 254 720.2 0 254 267 277 720.2 0 277 268 158 720.2 0 158 269 177 720.2 0 177 270 618 720.2 0 618 271 413 720.2 0 413 272 453 720.2 0 453 273 428 720.2 0 428 274 431 720.2 0 431 275 236 720.2 0 236 276 57 720.2 0 57 277 39 720.2 0 39 278 43 720.2 0 43 279 89 720.2 0 89 280 64 720.2 0 64 281 96 720.2 0 96 282 68 720.2 0 68 283 135 720.2 0 135 284 143 720.2 0 143 285 108 720.2 0 108 286 60 720.2 0 60 287 54 720.2 0 54 288 48 720.2 0 48 289 52 720.2 0 52 290 60 720.2 0 60 291 46 720.2 0 46 292 64 720.2 0 64 293 73 720.2 0 73 294 78 720.2 0 78 295 75 720.2 0 75 296 78 720.2 0 78 297 55 720.2 0 55 298 80 720.2 0 80 299 73 720.2 0 73 300 60 720.2 0 60 301 111 720.2 0 111 Finished in 12.45 s (75 us/read; 0.80 M reads/minute). === Summary === Total reads processed: 165,090 Reads with adapters: 56,508 (34.2%) Reads that were too short: 83 (0.1%) Reads written (passing filters): 56,425 (34.2%) Total basepairs processed: 43,737,084 bp Total written (filtered): 15,272,416 bp (34.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 56508 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 16 1 0.0 3 0 0 0 0 1 17 3 0.0 3 0 0 0 2 1 18 39 0.0 3 0 0 28 7 4 19 823 0.0 3 0 748 47 22 6 20 54548 0.0 4 51965 2122 339 94 28 21 148 0.0 4 23 108 11 4 2 22 12 0.0 4 2 1 6 1 2 23 107 0.0 4 2 0 0 76 29 24 7 0.0 4 3 0 0 0 4 27 3 0.0 4 3 28 3 0.0 4 0 0 0 0 3 33 2 0.0 4 0 0 0 0 2 41 8 0.0 4 0 0 0 0 8 42 3 0.0 4 0 0 0 0 3 43 3 0.0 4 0 0 0 2 1 44 1 0.0 4 0 0 0 0 1 54 1 0.0 4 0 0 0 0 1 55 3 0.0 4 0 0 0 1 2 56 14 0.0 4 0 0 0 0 14 57 1 0.0 4 0 0 0 0 1 58 15 0.0 4 0 0 0 0 15 78 1 0.0 4 0 0 0 0 1 87 7 0.0 4 0 0 0 0 7 88 2 0.0 4 0 0 0 0 2 90 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 0 0 0 2 115 1 0.0 4 0 0 0 0 1 119 1 0.0 4 0 0 0 0 1 125 1 0.0 4 0 0 0 0 1 126 10 0.0 4 0 0 0 0 10 127 670 0.0 4 0 0 0 0 670 130 25 0.0 4 0 0 0 0 25 134 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 149 2 0.0 4 0 0 0 0 2 152 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 192 3 0.0 4 0 0 0 0 3 194 1 0.0 4 0 0 0 1 201 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 209 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 0 1 216 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 0 4 229 2 0.0 4 0 0 0 0 2 231 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 234 2 0.0 4 0 0 0 0 2 235 2 0.0 4 0 0 0 0 2 236 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 283 1 0.0 4 0 0 0 0 1 285 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 3.16 s (56 us/read; 1.07 M reads/minute). === Summary === Total reads processed: 56,425 Reads with adapters: 11,737 (20.8%) Reads written (passing filters): 56,425 (100.0%) Total basepairs processed: 15,272,416 bp Total written (filtered): 15,096,813 bp (98.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 11737 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.1% C: 7.0% G: 87.6% T: 3.4% 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 24 881.6 0 24 4 13 220.4 0 13 5 1 55.1 0 1 6 3 13.8 0 3 7 3 3.4 0 3 8 10 0.9 0 10 9 2311 0.2 0 150 2161 10 6643 0.1 1 324 6319 11 2359 0.0 1 57 2302 12 24 0.0 1 0 24 13 31 0.0 1 0 31 15 1 0.0 1 0 1 19 1 0.0 1 0 1 22 2 0.0 1 2 30 1 0.0 1 1 58 10 0.0 1 7 3 59 2 0.0 1 2 72 1 0.0 1 1 75 1 0.0 1 1 138 2 0.0 1 2 149 2 0.0 1 1 1 150 53 0.0 1 44 9 152 2 0.0 1 1 1 153 1 0.0 1 0 1 169 2 0.0 1 2 189 1 0.0 1 0 1 207 1 0.0 1 1 208 52 0.0 1 46 6 209 2 0.0 1 2 210 9 0.0 1 4 5 217 1 0.0 1 1 222 2 0.0 1 2 223 156 0.0 1 146 10 224 6 0.0 1 6 225 3 0.0 1 3 226 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.