This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATCCT -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 67.34 s (28 us/read; 2.18 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 1,320,770 (54.1%) Reads that were too short: 34,785 (1.4%) Reads written (passing filters): 1,285,985 (52.7%) Total basepairs processed: 735,190,694 bp Total written (filtered): 350,840,776 bp (47.7%) === Adapter 1 === Sequence: AATCCT; Type: regular 5'; Length: 6; Trimmed: 1320770 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 986 596.3 0 986 7 60056 596.3 0 60056 8 1910 596.3 0 1910 9 46778 596.3 0 46778 10 915 596.3 0 915 11 1278 596.3 0 1278 12 83426 596.3 0 83426 13 3652 596.3 0 3652 14 615 596.3 0 615 15 1346 596.3 0 1346 16 439 596.3 0 439 17 952 596.3 0 952 18 3622 596.3 0 3622 19 1000 596.3 0 1000 20 1184 596.3 0 1184 21 413 596.3 0 413 22 643 596.3 0 643 23 1590 596.3 0 1590 24 1889 596.3 0 1889 25 3312 596.3 0 3312 26 5564 596.3 0 5564 27 5775 596.3 0 5775 28 11615 596.3 0 11615 29 23831 596.3 0 23831 30 353367 596.3 0 353367 31 210815 596.3 0 210815 32 447390 596.3 0 447390 33 1484 596.3 0 1484 34 146 596.3 0 146 35 166 596.3 0 166 36 340 596.3 0 340 37 130 596.3 0 130 38 14 596.3 0 14 39 152 596.3 0 152 40 15 596.3 0 15 41 19 596.3 0 19 42 14 596.3 0 14 43 26 596.3 0 26 44 26 596.3 0 26 45 35 596.3 0 35 46 13 596.3 0 13 47 28 596.3 0 28 48 14 596.3 0 14 49 22 596.3 0 22 50 11 596.3 0 11 51 14 596.3 0 14 52 11 596.3 0 11 53 18 596.3 0 18 54 125 596.3 0 125 55 225 596.3 0 225 56 249 596.3 0 249 57 11 596.3 0 11 58 18 596.3 0 18 59 15 596.3 0 15 60 18 596.3 0 18 61 8 596.3 0 8 62 11 596.3 0 11 63 17 596.3 0 17 64 17 596.3 0 17 65 13 596.3 0 13 66 15 596.3 0 15 67 12 596.3 0 12 68 15 596.3 0 15 69 26 596.3 0 26 70 23 596.3 0 23 71 19 596.3 0 19 72 15 596.3 0 15 73 13 596.3 0 13 74 15 596.3 0 15 75 14 596.3 0 14 76 15 596.3 0 15 77 7 596.3 0 7 78 14 596.3 0 14 79 19 596.3 0 19 80 35 596.3 0 35 81 48 596.3 0 48 82 43 596.3 0 43 83 58 596.3 0 58 84 31 596.3 0 31 85 41 596.3 0 41 86 41 596.3 0 41 87 62 596.3 0 62 88 147 596.3 0 147 89 58 596.3 0 58 90 32 596.3 0 32 91 20 596.3 0 20 92 32 596.3 0 32 93 32 596.3 0 32 94 25 596.3 0 25 95 22 596.3 0 22 96 26 596.3 0 26 97 30 596.3 0 30 98 27 596.3 0 27 99 19 596.3 0 19 100 12 596.3 0 12 101 33 596.3 0 33 102 121 596.3 0 121 103 135 596.3 0 135 104 311 596.3 0 311 105 522 596.3 0 522 106 773 596.3 0 773 107 485 596.3 0 485 108 17 596.3 0 17 109 26 596.3 0 26 110 15 596.3 0 15 111 28 596.3 0 28 112 28 596.3 0 28 113 35 596.3 0 35 114 205 596.3 0 205 115 14 596.3 0 14 116 21 596.3 0 21 117 31 596.3 0 31 118 20 596.3 0 20 119 25 596.3 0 25 120 29 596.3 0 29 121 16 596.3 0 16 122 32 596.3 0 32 123 53 596.3 0 53 124 218 596.3 0 218 125 364 596.3 0 364 126 167 596.3 0 167 127 38 596.3 0 38 128 39 596.3 0 39 129 35 596.3 0 35 130 17 596.3 0 17 131 20 596.3 0 20 132 16 596.3 0 16 133 22 596.3 0 22 134 24 596.3 0 24 135 12 596.3 0 12 136 24 596.3 0 24 137 93 596.3 0 93 138 103 596.3 0 103 139 132 596.3 0 132 140 42 596.3 0 42 141 160 596.3 0 160 142 56 596.3 0 56 143 74 596.3 0 74 144 30 596.3 0 30 145 27 596.3 0 27 146 30 596.3 0 30 147 26 596.3 0 26 148 53 596.3 0 53 149 67 596.3 0 67 150 45 596.3 0 45 151 42 596.3 0 42 152 22 596.3 0 22 153 24 596.3 0 24 154 20 596.3 0 20 155 28 596.3 0 28 156 27 596.3 0 27 157 34 596.3 0 34 158 23 596.3 0 23 159 129 596.3 0 129 160 80 596.3 0 80 161 251 596.3 0 251 162 49 596.3 0 49 163 44 596.3 0 44 164 34 596.3 0 34 165 41 596.3 0 41 166 70 596.3 0 70 167 49 596.3 0 49 168 248 596.3 0 248 169 26 596.3 0 26 170 22 596.3 0 22 171 35 596.3 0 35 172 26 596.3 0 26 173 25 596.3 0 25 174 19 596.3 0 19 175 33 596.3 0 33 176 27 596.3 0 27 177 39 596.3 0 39 178 22 596.3 0 22 179 14 596.3 0 14 180 22 596.3 0 22 181 27 596.3 0 27 182 40 596.3 0 40 183 57 596.3 0 57 184 42 596.3 0 42 185 34 596.3 0 34 186 32 596.3 0 32 187 40 596.3 0 40 188 34 596.3 0 34 189 33 596.3 0 33 190 26 596.3 0 26 191 25 596.3 0 25 192 34 596.3 0 34 193 42 596.3 0 42 194 19 596.3 0 19 195 23 596.3 0 23 196 24 596.3 0 24 197 18 596.3 0 18 198 24 596.3 0 24 199 41 596.3 0 41 200 46 596.3 0 46 201 39 596.3 0 39 202 30 596.3 0 30 203 29 596.3 0 29 204 43 596.3 0 43 205 113 596.3 0 113 206 148 596.3 0 148 207 58 596.3 0 58 208 20 596.3 0 20 209 24 596.3 0 24 210 25 596.3 0 25 211 32 596.3 0 32 212 32 596.3 0 32 213 40 596.3 0 40 214 40 596.3 0 40 215 48 596.3 0 48 216 38 596.3 0 38 217 40 596.3 0 40 218 35 596.3 0 35 219 43 596.3 0 43 220 51 596.3 0 51 221 38 596.3 0 38 222 26 596.3 0 26 223 19 596.3 0 19 224 26 596.3 0 26 225 33 596.3 0 33 226 94 596.3 0 94 227 130 596.3 0 130 228 145 596.3 0 145 229 39 596.3 0 39 230 45 596.3 0 45 231 54 596.3 0 54 232 79 596.3 0 79 233 56 596.3 0 56 234 35 596.3 0 35 235 24 596.3 0 24 236 60 596.3 0 60 237 28 596.3 0 28 238 28 596.3 0 28 239 39 596.3 0 39 240 45 596.3 0 45 241 65 596.3 0 65 242 49 596.3 0 49 243 41 596.3 0 41 244 59 596.3 0 59 245 60 596.3 0 60 246 102 596.3 0 102 247 207 596.3 0 207 248 75 596.3 0 75 249 108 596.3 0 108 250 190 596.3 0 190 251 101 596.3 0 101 252 107 596.3 0 107 253 157 596.3 0 157 254 1145 596.3 0 1145 255 2153 596.3 0 2153 256 1307 596.3 0 1307 257 1000 596.3 0 1000 258 287 596.3 0 287 259 290 596.3 0 290 260 3874 596.3 0 3874 261 5786 596.3 0 5786 262 6916 596.3 0 6916 263 142 596.3 0 142 264 51 596.3 0 51 265 81 596.3 0 81 266 54 596.3 0 54 267 68 596.3 0 68 268 75 596.3 0 75 269 106 596.3 0 106 270 88 596.3 0 88 271 76 596.3 0 76 272 259 596.3 0 259 273 360 596.3 0 360 274 716 596.3 0 716 275 1492 596.3 0 1492 276 1136 596.3 0 1136 277 1509 596.3 0 1509 278 609 596.3 0 609 279 427 596.3 0 427 280 191 596.3 0 191 281 363 596.3 0 363 282 266 596.3 0 266 283 125 596.3 0 125 284 23 596.3 0 23 285 34 596.3 0 34 286 20 596.3 0 20 287 23 596.3 0 23 288 42 596.3 0 42 289 46 596.3 0 46 290 41 596.3 0 41 291 37 596.3 0 37 292 30 596.3 0 30 293 40 596.3 0 40 294 49 596.3 0 49 295 49 596.3 0 49 296 26 596.3 0 26 297 19 596.3 0 19 298 18 596.3 0 18 299 27 596.3 0 27 300 25 596.3 0 25 301 31 596.3 0 31 Finished in 60.00 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 1,285,985 Reads with adapters: 65,035 (5.1%) Reads that were too short: 53 (0.0%) Reads written (passing filters): 64,982 (5.1%) Total basepairs processed: 350,840,776 bp Total written (filtered): 17,260,776 bp (4.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 65035 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 20 0.0 3 0 0 20 19 522 0.0 3 0 506 12 2 2 20 59238 0.0 4 58135 1060 40 2 1 21 117 0.0 4 24 91 2 22 8 0.0 4 1 0 7 23 47 0.0 4 0 2 0 38 7 25 1 0.0 4 1 26 1 0.0 4 1 32 1 0.0 4 1 47 1 0.0 4 1 54 1 0.0 4 1 55 1 0.0 4 0 1 57 1 0.0 4 1 64 1 0.0 4 0 0 0 0 1 67 1 0.0 4 1 76 1 0.0 4 1 78 1 0.0 4 1 80 5 0.0 4 0 0 0 0 5 83 1 0.0 4 0 0 0 0 1 84 438 0.0 4 0 0 0 2 436 88 1 0.0 4 0 0 0 0 1 99 1 0.0 4 1 100 1 0.0 4 1 101 2 0.0 4 2 111 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 121 1 0.0 4 0 0 0 0 1 122 4 0.0 4 0 0 0 0 4 123 30 0.0 4 0 0 0 0 30 124 3561 0.0 4 0 0 0 0 3561 125 9 0.0 4 0 0 0 0 9 126 6 0.0 4 0 0 0 0 6 127 809 0.0 4 0 0 0 0 809 128 3 0.0 4 0 0 0 0 3 141 1 0.0 4 1 142 32 0.0 4 0 0 0 0 32 147 1 0.0 4 0 0 0 0 1 148 93 0.0 4 0 0 1 0 92 149 11 0.0 4 0 0 0 0 11 150 3 0.0 4 0 0 0 0 3 162 1 0.0 4 1 166 2 0.0 4 0 0 0 0 2 167 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 182 4 0.0 4 0 0 0 0 4 187 1 0.0 4 1 193 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 1 200 1 0.0 4 0 0 0 0 1 203 1 0.0 4 1 213 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 1 0.0 4 1 225 9 0.0 4 0 0 0 0 9 226 3 0.0 4 0 0 0 0 3 228 8 0.0 4 0 0 0 0 8 229 2 0.0 4 0 0 0 0 2 233 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 1 236 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 1 263 1 0.0 4 0 0 0 0 1 266 1 0.0 4 0 0 0 0 1 267 1 0.0 4 0 0 0 0 1 279 2 0.0 4 0 0 0 0 2 281 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 1 284 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 2.20 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 64,982 Reads with adapters: 1,148 (1.8%) Reads written (passing filters): 64,982 (100.0%) Total basepairs processed: 17,260,776 bp Total written (filtered): 17,248,465 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1148 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 8.7% C: 7.6% G: 81.4% T: 2.3% 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 3 126 1015.3 0 126 4 21 253.8 0 21 5 2 63.5 0 2 6 1 15.9 0 1 9 5 0.2 0 2 3 10 55 0.1 1 3 52 11 842 0.0 1 8 834 12 81 0.0 1 1 80 13 6 0.0 1 0 6 14 1 0.0 1 0 1 15 1 0.0 1 0 1 20 1 0.0 1 1 30 1 0.0 1 0 1 55 1 0.0 1 0 1 83 1 0.0 1 1 225 2 0.0 1 2 259 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.