This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ATGGAT -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 66.52 s (26 us/read; 2.30 M reads/minute). === Summary === Total reads processed: 2,546,118 Reads with adapters: 200,420 (7.9%) Reads that were too short: 3,733 (0.1%) Reads written (passing filters): 196,687 (7.7%) Total basepairs processed: 766,381,518 bp Total written (filtered): 55,567,563 bp (7.3%) === Adapter 1 === Sequence: ATGGAT; Type: regular 5'; Length: 6; Trimmed: 200420 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1217 621.6 0 1217 7 93001 621.6 0 93001 8 1565 621.6 0 1565 9 77504 621.6 0 77504 10 64 621.6 0 64 11 75 621.6 0 75 12 59 621.6 0 59 13 63 621.6 0 63 14 59 621.6 0 59 15 57 621.6 0 57 16 176 621.6 0 176 17 110 621.6 0 110 18 142 621.6 0 142 19 60 621.6 0 60 20 67 621.6 0 67 21 47 621.6 0 47 22 61 621.6 0 61 23 82 621.6 0 82 24 61 621.6 0 61 25 65 621.6 0 65 26 60 621.6 0 60 27 49 621.6 0 49 28 54 621.6 0 54 29 47 621.6 0 47 30 46 621.6 0 46 31 48 621.6 0 48 32 48 621.6 0 48 33 71 621.6 0 71 34 62 621.6 0 62 35 56 621.6 0 56 36 63 621.6 0 63 37 58 621.6 0 58 38 84 621.6 0 84 39 71 621.6 0 71 40 48 621.6 0 48 41 62 621.6 0 62 42 61 621.6 0 61 43 65 621.6 0 65 44 61 621.6 0 61 45 58 621.6 0 58 46 167 621.6 0 167 47 170 621.6 0 170 48 250 621.6 0 250 49 73 621.6 0 73 50 64 621.6 0 64 51 73 621.6 0 73 52 57 621.6 0 57 53 44 621.6 0 44 54 40 621.6 0 40 55 49 621.6 0 49 56 51 621.6 0 51 57 60 621.6 0 60 58 78 621.6 0 78 59 79 621.6 0 79 60 69 621.6 0 69 61 48 621.6 0 48 62 67 621.6 0 67 63 72 621.6 0 72 64 41 621.6 0 41 65 59 621.6 0 59 66 69 621.6 0 69 67 86 621.6 0 86 68 54 621.6 0 54 69 48 621.6 0 48 70 79 621.6 0 79 71 55 621.6 0 55 72 50 621.6 0 50 73 56 621.6 0 56 74 61 621.6 0 61 75 47 621.6 0 47 76 58 621.6 0 58 77 56 621.6 0 56 78 58 621.6 0 58 79 113 621.6 0 113 80 96 621.6 0 96 81 176 621.6 0 176 82 82 621.6 0 82 83 181 621.6 0 181 84 132 621.6 0 132 85 86 621.6 0 86 86 84 621.6 0 84 87 108 621.6 0 108 88 92 621.6 0 92 89 82 621.6 0 82 90 96 621.6 0 96 91 100 621.6 0 100 92 175 621.6 0 175 93 173 621.6 0 173 94 3960 621.6 0 3960 95 1408 621.6 0 1408 96 3125 621.6 0 3125 97 766 621.6 0 766 98 945 621.6 0 945 99 55 621.6 0 55 100 51 621.6 0 51 101 63 621.6 0 63 102 53 621.6 0 53 103 51 621.6 0 51 104 66 621.6 0 66 105 60 621.6 0 60 106 62 621.6 0 62 107 71 621.6 0 71 108 43 621.6 0 43 109 71 621.6 0 71 110 54 621.6 0 54 111 58 621.6 0 58 112 60 621.6 0 60 113 67 621.6 0 67 114 65 621.6 0 65 115 102 621.6 0 102 116 58 621.6 0 58 117 53 621.6 0 53 118 85 621.6 0 85 119 54 621.6 0 54 120 57 621.6 0 57 121 54 621.6 0 54 122 53 621.6 0 53 123 46 621.6 0 46 124 76 621.6 0 76 125 79 621.6 0 79 126 78 621.6 0 78 127 53 621.6 0 53 128 58 621.6 0 58 129 81 621.6 0 81 130 84 621.6 0 84 131 526 621.6 0 526 132 192 621.6 0 192 133 301 621.6 0 301 134 54 621.6 0 54 135 61 621.6 0 61 136 55 621.6 0 55 137 125 621.6 0 125 138 122 621.6 0 122 139 180 621.6 0 180 140 71 621.6 0 71 141 88 621.6 0 88 142 77 621.6 0 77 143 93 621.6 0 93 144 150 621.6 0 150 145 67 621.6 0 67 146 101 621.6 0 101 147 135 621.6 0 135 148 72 621.6 0 72 149 69 621.6 0 69 150 38 621.6 0 38 151 37 621.6 0 37 152 21 621.6 0 21 153 29 621.6 0 29 154 33 621.6 0 33 155 32 621.6 0 32 156 40 621.6 0 40 157 42 621.6 0 42 158 138 621.6 0 138 159 89 621.6 0 89 160 252 621.6 0 252 161 34 621.6 0 34 162 34 621.6 0 34 163 33 621.6 0 33 164 38 621.6 0 38 165 19 621.6 0 19 166 36 621.6 0 36 167 34 621.6 0 34 168 25 621.6 0 25 169 18 621.6 0 18 170 32 621.6 0 32 171 24 621.6 0 24 172 32 621.6 0 32 173 31 621.6 0 31 174 34 621.6 0 34 175 25 621.6 0 25 176 21 621.6 0 21 177 25 621.6 0 25 178 34 621.6 0 34 179 35 621.6 0 35 180 64 621.6 0 64 181 29 621.6 0 29 182 32 621.6 0 32 183 23 621.6 0 23 184 21 621.6 0 21 185 40 621.6 0 40 186 37 621.6 0 37 187 111 621.6 0 111 188 27 621.6 0 27 189 29 621.6 0 29 190 26 621.6 0 26 191 26 621.6 0 26 192 38 621.6 0 38 193 40 621.6 0 40 194 35 621.6 0 35 195 27 621.6 0 27 196 22 621.6 0 22 197 25 621.6 0 25 198 17 621.6 0 17 199 30 621.6 0 30 200 17 621.6 0 17 201 21 621.6 0 21 202 43 621.6 0 43 203 32 621.6 0 32 204 37 621.6 0 37 205 130 621.6 0 130 206 86 621.6 0 86 207 72 621.6 0 72 208 26 621.6 0 26 209 30 621.6 0 30 210 38 621.6 0 38 211 27 621.6 0 27 212 21 621.6 0 21 213 29 621.6 0 29 214 21 621.6 0 21 215 15 621.6 0 15 216 25 621.6 0 25 217 25 621.6 0 25 218 32 621.6 0 32 219 33 621.6 0 33 220 22 621.6 0 22 221 32 621.6 0 32 222 22 621.6 0 22 223 29 621.6 0 29 224 27 621.6 0 27 225 21 621.6 0 21 226 34 621.6 0 34 227 29 621.6 0 29 228 36 621.6 0 36 229 32 621.6 0 32 230 18 621.6 0 18 231 18 621.6 0 18 232 40 621.6 0 40 233 32 621.6 0 32 234 34 621.6 0 34 235 21 621.6 0 21 236 29 621.6 0 29 237 20 621.6 0 20 238 34 621.6 0 34 239 28 621.6 0 28 240 31 621.6 0 31 241 37 621.6 0 37 242 31 621.6 0 31 243 46 621.6 0 46 244 26 621.6 0 26 245 23 621.6 0 23 246 32 621.6 0 32 247 24 621.6 0 24 248 23 621.6 0 23 249 23 621.6 0 23 250 26 621.6 0 26 251 27 621.6 0 27 252 31 621.6 0 31 253 29 621.6 0 29 254 37 621.6 0 37 255 32 621.6 0 32 256 33 621.6 0 33 257 40 621.6 0 40 258 34 621.6 0 34 259 40 621.6 0 40 260 33 621.6 0 33 261 51 621.6 0 51 262 46 621.6 0 46 263 37 621.6 0 37 264 33 621.6 0 33 265 31 621.6 0 31 266 36 621.6 0 36 267 23 621.6 0 23 268 23 621.6 0 23 269 30 621.6 0 30 270 128 621.6 0 128 271 129 621.6 0 129 272 61 621.6 0 61 273 26 621.6 0 26 274 26 621.6 0 26 275 27 621.6 0 27 276 36 621.6 0 36 277 38 621.6 0 38 278 29 621.6 0 29 279 37 621.6 0 37 280 29 621.6 0 29 281 53 621.6 0 53 282 47 621.6 0 47 283 85 621.6 0 85 284 46 621.6 0 46 285 29 621.6 0 29 286 29 621.6 0 29 287 42 621.6 0 42 288 43 621.6 0 43 289 33 621.6 0 33 290 60 621.6 0 60 291 35 621.6 0 35 292 60 621.6 0 60 293 27 621.6 0 27 294 43 621.6 0 43 295 39 621.6 0 39 296 31 621.6 0 31 297 41 621.6 0 41 298 49 621.6 0 49 299 43 621.6 0 43 300 59 621.6 0 59 301 25 621.6 0 25 Finished in 9.74 s (50 us/read; 1.21 M reads/minute). === Summary === Total reads processed: 196,687 Reads with adapters: 93,688 (47.6%) Reads that were too short: 51 (0.0%) Reads written (passing filters): 93,637 (47.6%) Total basepairs processed: 55,567,563 bp Total written (filtered): 25,591,978 bp (46.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 93688 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 30 0.0 3 0 0 28 1 1 19 764 0.0 3 0 747 16 0 1 20 91933 0.0 4 90587 1308 31 7 21 227 0.0 4 20 204 3 22 19 0.0 4 4 1 13 1 23 55 0.0 4 2 0 1 39 13 24 4 0.0 4 2 0 0 0 2 28 2 0.0 4 2 34 1 0.0 4 1 35 1 0.0 4 1 63 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 1 115 1 0.0 4 0 0 0 0 1 117 2 0.0 4 0 0 0 0 2 125 2 0.0 4 0 0 0 0 2 126 3 0.0 4 0 0 0 0 3 127 590 0.0 4 0 0 0 0 590 128 1 0.0 4 0 0 0 0 1 141 22 0.0 4 0 0 0 1 21 142 2 0.0 4 0 0 0 0 2 152 1 0.0 4 0 0 0 0 1 158 1 0.0 4 0 0 0 0 1 189 2 0.0 4 0 0 0 0 2 208 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 228 8 0.0 4 0 0 0 0 8 229 3 0.0 4 0 0 0 0 3 230 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 0 0 0 1 262 2 0.0 4 0 0 0 0 2 263 1 0.0 4 0 0 0 0 1 275 1 0.0 4 1 291 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 3.23 s (34 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 93,637 Reads with adapters: 1,814 (1.9%) Reads written (passing filters): 93,637 (100.0%) Total basepairs processed: 25,591,978 bp Total written (filtered): 25,570,901 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1814 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 9.0% C: 4.4% G: 84.7% T: 1.8% 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 3 153 1463.1 0 153 4 14 365.8 0 14 5 8 91.4 0 8 6 2 22.9 0 2 9 8 0.4 0 3 5 10 32 0.1 1 1 31 11 1470 0.0 1 15 1455 12 103 0.0 1 4 99 13 3 0.0 1 0 3 15 2 0.0 1 0 2 20 3 0.0 1 3 29 1 0.0 1 1 49 1 0.0 1 1 82 1 0.0 1 1 127 1 0.0 1 1 149 1 0.0 1 1 152 1 0.0 1 0 1 155 1 0.0 1 1 157 1 0.0 1 0 1 164 1 0.0 1 1 191 1 0.0 1 0 1 193 1 0.0 1 0 1 197 1 0.0 1 1 210 2 0.0 1 2 259 2 0.0 1 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.