This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ACAGGT -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 63.74 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 209,036 (8.6%) Reads that were too short: 12,293 (0.5%) Reads written (passing filters): 196,743 (8.1%) Total basepairs processed: 735,190,694 bp Total written (filtered): 55,700,792 bp (7.6%) === Adapter 1 === Sequence: ACAGGT; Type: regular 5'; Length: 6; Trimmed: 209036 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1801 596.3 0 1801 7 96961 596.3 0 96961 8 78264 596.3 0 78264 9 83 596.3 0 83 10 47 596.3 0 47 11 31 596.3 0 31 12 188 596.3 0 188 13 15 596.3 0 15 14 28 596.3 0 28 15 19 596.3 0 19 16 26 596.3 0 26 17 32 596.3 0 32 18 36 596.3 0 36 19 28 596.3 0 28 20 134 596.3 0 134 21 26 596.3 0 26 22 24 596.3 0 24 23 21 596.3 0 21 24 19 596.3 0 19 25 33 596.3 0 33 26 34 596.3 0 34 27 37 596.3 0 37 28 18 596.3 0 18 29 26 596.3 0 26 30 46 596.3 0 46 31 26 596.3 0 26 32 27 596.3 0 27 33 25 596.3 0 25 34 37 596.3 0 37 35 30 596.3 0 30 36 27 596.3 0 27 37 37 596.3 0 37 38 36 596.3 0 36 39 41 596.3 0 41 40 21 596.3 0 21 41 41 596.3 0 41 42 35 596.3 0 35 43 22 596.3 0 22 44 43 596.3 0 43 45 39 596.3 0 39 46 25 596.3 0 25 47 26 596.3 0 26 48 46 596.3 0 46 49 23 596.3 0 23 50 35 596.3 0 35 51 22 596.3 0 22 52 21 596.3 0 21 53 38 596.3 0 38 54 52 596.3 0 52 55 40 596.3 0 40 56 31 596.3 0 31 57 24 596.3 0 24 58 27 596.3 0 27 59 42 596.3 0 42 60 27 596.3 0 27 61 34 596.3 0 34 62 34 596.3 0 34 63 30 596.3 0 30 64 35 596.3 0 35 65 51 596.3 0 51 66 60 596.3 0 60 67 74 596.3 0 74 68 90 596.3 0 90 69 112 596.3 0 112 70 173 596.3 0 173 71 2198 596.3 0 2198 72 756 596.3 0 756 73 2078 596.3 0 2078 74 55 596.3 0 55 75 27 596.3 0 27 76 47 596.3 0 47 77 124 596.3 0 124 78 60 596.3 0 60 79 147 596.3 0 147 80 30 596.3 0 30 81 23 596.3 0 23 82 28 596.3 0 28 83 57 596.3 0 57 84 58 596.3 0 58 85 56 596.3 0 56 86 89 596.3 0 89 87 63 596.3 0 63 88 28 596.3 0 28 89 22 596.3 0 22 90 30 596.3 0 30 91 39 596.3 0 39 92 38 596.3 0 38 93 42 596.3 0 42 94 65 596.3 0 65 95 88 596.3 0 88 96 883 596.3 0 883 97 346 596.3 0 346 98 677 596.3 0 677 99 248 596.3 0 248 100 33 596.3 0 33 101 35 596.3 0 35 102 35 596.3 0 35 103 60 596.3 0 60 104 39 596.3 0 39 105 27 596.3 0 27 106 30 596.3 0 30 107 29 596.3 0 29 108 31 596.3 0 31 109 30 596.3 0 30 110 23 596.3 0 23 111 25 596.3 0 25 112 41 596.3 0 41 113 35 596.3 0 35 114 43 596.3 0 43 115 49 596.3 0 49 116 55 596.3 0 55 117 62 596.3 0 62 118 94 596.3 0 94 119 52 596.3 0 52 120 31 596.3 0 31 121 29 596.3 0 29 122 44 596.3 0 44 123 47 596.3 0 47 124 88 596.3 0 88 125 120 596.3 0 120 126 136 596.3 0 136 127 71 596.3 0 71 128 76 596.3 0 76 129 120 596.3 0 120 130 111 596.3 0 111 131 55 596.3 0 55 132 156 596.3 0 156 133 55 596.3 0 55 134 54 596.3 0 54 135 118 596.3 0 118 136 55 596.3 0 55 137 68 596.3 0 68 138 39 596.3 0 39 139 53 596.3 0 53 140 60 596.3 0 60 141 74 596.3 0 74 142 65 596.3 0 65 143 74 596.3 0 74 144 77 596.3 0 77 145 134 596.3 0 134 146 70 596.3 0 70 147 64 596.3 0 64 148 54 596.3 0 54 149 86 596.3 0 86 150 63 596.3 0 63 151 62 596.3 0 62 152 39 596.3 0 39 153 41 596.3 0 41 154 51 596.3 0 51 155 62 596.3 0 62 156 58 596.3 0 58 157 38 596.3 0 38 158 42 596.3 0 42 159 32 596.3 0 32 160 42 596.3 0 42 161 48 596.3 0 48 162 40 596.3 0 40 163 34 596.3 0 34 164 53 596.3 0 53 165 68 596.3 0 68 166 55 596.3 0 55 167 63 596.3 0 63 168 31 596.3 0 31 169 43 596.3 0 43 170 36 596.3 0 36 171 46 596.3 0 46 172 89 596.3 0 89 173 231 596.3 0 231 174 150 596.3 0 150 175 320 596.3 0 320 176 79 596.3 0 79 177 40 596.3 0 40 178 49 596.3 0 49 179 56 596.3 0 56 180 64 596.3 0 64 181 56 596.3 0 56 182 47 596.3 0 47 183 49 596.3 0 49 184 40 596.3 0 40 185 76 596.3 0 76 186 92 596.3 0 92 187 150 596.3 0 150 188 72 596.3 0 72 189 59 596.3 0 59 190 78 596.3 0 78 191 156 596.3 0 156 192 696 596.3 0 696 193 464 596.3 0 464 194 749 596.3 0 749 195 343 596.3 0 343 196 50 596.3 0 50 197 47 596.3 0 47 198 44 596.3 0 44 199 79 596.3 0 79 200 80 596.3 0 80 201 41 596.3 0 41 202 55 596.3 0 55 203 66 596.3 0 66 204 61 596.3 0 61 205 82 596.3 0 82 206 125 596.3 0 125 207 93 596.3 0 93 208 87 596.3 0 87 209 76 596.3 0 76 210 144 596.3 0 144 211 140 596.3 0 140 212 135 596.3 0 135 213 70 596.3 0 70 214 43 596.3 0 43 215 62 596.3 0 62 216 59 596.3 0 59 217 143 596.3 0 143 218 68 596.3 0 68 219 99 596.3 0 99 220 148 596.3 0 148 221 99 596.3 0 99 222 59 596.3 0 59 223 44 596.3 0 44 224 41 596.3 0 41 225 130 596.3 0 130 226 101 596.3 0 101 227 324 596.3 0 324 228 85 596.3 0 85 229 75 596.3 0 75 230 59 596.3 0 59 231 45 596.3 0 45 232 54 596.3 0 54 233 81 596.3 0 81 234 75 596.3 0 75 235 91 596.3 0 91 236 92 596.3 0 92 237 127 596.3 0 127 238 122 596.3 0 122 239 87 596.3 0 87 240 128 596.3 0 128 241 200 596.3 0 200 242 152 596.3 0 152 243 99 596.3 0 99 244 67 596.3 0 67 245 78 596.3 0 78 246 95 596.3 0 95 247 125 596.3 0 125 248 148 596.3 0 148 249 174 596.3 0 174 250 75 596.3 0 75 251 72 596.3 0 72 252 60 596.3 0 60 253 80 596.3 0 80 254 165 596.3 0 165 255 190 596.3 0 190 256 118 596.3 0 118 257 87 596.3 0 87 258 102 596.3 0 102 259 106 596.3 0 106 260 98 596.3 0 98 261 106 596.3 0 106 262 106 596.3 0 106 263 77 596.3 0 77 264 86 596.3 0 86 265 184 596.3 0 184 266 366 596.3 0 366 267 162 596.3 0 162 268 148 596.3 0 148 269 96 596.3 0 96 270 135 596.3 0 135 271 159 596.3 0 159 272 383 596.3 0 383 273 493 596.3 0 493 274 411 596.3 0 411 275 189 596.3 0 189 276 89 596.3 0 89 277 79 596.3 0 79 278 107 596.3 0 107 279 123 596.3 0 123 280 157 596.3 0 157 281 170 596.3 0 170 282 135 596.3 0 135 283 90 596.3 0 90 284 53 596.3 0 53 285 84 596.3 0 84 286 123 596.3 0 123 287 91 596.3 0 91 288 154 596.3 0 154 289 137 596.3 0 137 290 240 596.3 0 240 291 131 596.3 0 131 292 95 596.3 0 95 293 125 596.3 0 125 294 209 596.3 0 209 295 190 596.3 0 190 296 225 596.3 0 225 297 87 596.3 0 87 298 75 596.3 0 75 299 98 596.3 0 98 300 105 596.3 0 105 301 54 596.3 0 54 Finished in 9.83 s (50 us/read; 1.20 M reads/minute). === Summary === Total reads processed: 196,743 Reads with adapters: 81,213 (41.3%) Reads that were too short: 101 (0.1%) Reads written (passing filters): 81,112 (41.2%) Total basepairs processed: 55,700,792 bp Total written (filtered): 22,069,521 bp (39.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 81213 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 10 0.0 3 0 0 0 7 3 18 48 0.0 3 0 0 38 8 2 19 1338 0.0 3 0 1149 108 55 26 20 78491 0.0 4 73784 3853 641 166 47 21 186 0.0 4 33 137 9 2 5 22 12 0.0 4 0 0 11 1 23 295 0.0 4 12 2 0 204 77 24 5 0.0 4 3 0 0 0 2 27 1 0.0 4 0 0 0 0 1 29 2 0.0 4 2 30 1 0.0 4 1 32 1 0.0 4 0 0 0 0 1 35 1 0.0 4 1 46 1 0.0 4 1 76 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 88 1 0.0 4 0 0 0 0 1 89 1 0.0 4 0 0 0 0 1 110 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 117 2 0.0 4 0 1 0 0 1 125 2 0.0 4 0 0 0 0 2 126 10 0.0 4 0 0 0 0 10 127 686 0.0 4 0 0 0 0 686 128 4 0.0 4 0 0 0 0 4 135 1 0.0 4 0 0 0 0 1 137 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 1 0.0 4 0 0 0 0 1 153 5 0.0 4 0 0 0 0 5 155 1 0.0 4 0 1 161 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 174 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 1 201 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 207 2 0.0 4 0 0 0 1 1 208 1 0.0 4 0 0 0 0 1 211 2 0.0 4 0 0 0 0 2 215 2 0.0 4 0 0 0 0 2 217 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 222 2 0.0 4 0 0 0 1 1 223 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 0 0 1 225 1 0.0 4 0 0 0 0 1 226 1 0.0 4 0 0 0 0 1 228 24 0.0 4 0 0 0 2 22 229 12 0.0 4 0 0 0 2 10 230 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 234 6 0.0 4 0 0 0 1 5 235 5 0.0 4 0 0 0 0 5 236 1 0.0 4 0 0 0 0 1 237 7 0.0 4 0 0 0 0 7 244 1 0.0 4 0 0 0 0 1 249 1 0.0 4 0 0 0 0 1 255 1 0.0 4 0 0 0 0 1 260 1 0.0 4 0 0 0 0 1 263 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 274 1 0.0 4 0 0 0 0 1 277 1 0.0 4 0 0 0 0 1 279 1 0.0 4 0 0 0 0 1 282 2 0.0 4 0 0 0 0 2 283 2 0.0 4 0 0 0 0 2 285 4 0.0 4 0 0 0 0 4 292 3 0.0 4 0 0 0 0 3 293 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 2.89 s (36 us/read; 1.68 M reads/minute). === Summary === Total reads processed: 81,112 Reads with adapters: 11,306 (13.9%) Reads written (passing filters): 81,112 (100.0%) Total basepairs processed: 22,069,521 bp Total written (filtered): 21,938,843 bp (99.4%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 11306 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 3.1% C: 10.6% G: 83.5% T: 2.8% 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 3 209 1267.4 0 209 4 17 316.8 0 17 6 1 19.8 0 1 7 1 5.0 0 1 8 2 1.2 0 2 9 156 0.3 0 11 145 10 1849 0.1 1 135 1714 11 8685 0.0 1 349 8336 12 277 0.0 1 4 273 13 19 0.0 1 0 19 14 10 0.0 1 0 10 15 2 0.0 1 0 2 16 2 0.0 1 0 2 19 1 0.0 1 0 1 20 12 0.0 1 8 4 21 1 0.0 1 1 47 1 0.0 1 1 71 1 0.0 1 1 79 1 0.0 1 1 92 1 0.0 1 1 122 1 0.0 1 0 1 148 2 0.0 1 2 150 1 0.0 1 0 1 151 27 0.0 1 22 5 153 1 0.0 1 1 156 1 0.0 1 1 190 2 0.0 1 1 1 209 20 0.0 1 19 1 211 1 0.0 1 1 229 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.