This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGATG -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 144.44 s (49 us/read; 1.23 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 272,933 (9.3%) Reads that were too short: 19,039 (0.6%) Reads written (passing filters): 253,894 (8.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 57,064,484 bp (6.4%) === Adapter 1 === Sequence: AGGATG; Type: regular 5'; Length: 6; Trimmed: 272933 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 667 720.2 0 667 7 51920 720.2 0 51920 8 59735 720.2 0 59735 9 70 720.2 0 70 10 51 720.2 0 51 11 45 720.2 0 45 12 31 720.2 0 31 13 30 720.2 0 30 14 36 720.2 0 36 15 38 720.2 0 38 16 29 720.2 0 29 17 33 720.2 0 33 18 37 720.2 0 37 19 59 720.2 0 59 20 47 720.2 0 47 21 46 720.2 0 46 22 33 720.2 0 33 23 33 720.2 0 33 24 38 720.2 0 38 25 31 720.2 0 31 26 26 720.2 0 26 27 42 720.2 0 42 28 42 720.2 0 42 29 67 720.2 0 67 30 47 720.2 0 47 31 33 720.2 0 33 32 36 720.2 0 36 33 59 720.2 0 59 34 45 720.2 0 45 35 43 720.2 0 43 36 62 720.2 0 62 37 57 720.2 0 57 38 58 720.2 0 58 39 45 720.2 0 45 40 58 720.2 0 58 41 47 720.2 0 47 42 54 720.2 0 54 43 53 720.2 0 53 44 33 720.2 0 33 45 64 720.2 0 64 46 59 720.2 0 59 47 47 720.2 0 47 48 59 720.2 0 59 49 280 720.2 0 280 50 107 720.2 0 107 51 57 720.2 0 57 52 58 720.2 0 58 53 58 720.2 0 58 54 55 720.2 0 55 55 60 720.2 0 60 56 75 720.2 0 75 57 56 720.2 0 56 58 43 720.2 0 43 59 59 720.2 0 59 60 81 720.2 0 81 61 53 720.2 0 53 62 65 720.2 0 65 63 67 720.2 0 67 64 112 720.2 0 112 65 153 720.2 0 153 66 226 720.2 0 226 67 582 720.2 0 582 68 234 720.2 0 234 69 177 720.2 0 177 70 296 720.2 0 296 71 131 720.2 0 131 72 136 720.2 0 136 73 218 720.2 0 218 74 188 720.2 0 188 75 265 720.2 0 265 76 301 720.2 0 301 77 399 720.2 0 399 78 549 720.2 0 549 79 1305 720.2 0 1305 80 13037 720.2 0 13037 81 26309 720.2 0 26309 82 22084 720.2 0 22084 83 116 720.2 0 116 84 81 720.2 0 81 85 39 720.2 0 39 86 46 720.2 0 46 87 53 720.2 0 53 88 90 720.2 0 90 89 53 720.2 0 53 90 36 720.2 0 36 91 42 720.2 0 42 92 30 720.2 0 30 93 50 720.2 0 50 94 73 720.2 0 73 95 77 720.2 0 77 96 1501 720.2 0 1501 97 79 720.2 0 79 98 41 720.2 0 41 99 63 720.2 0 63 100 28 720.2 0 28 101 31 720.2 0 31 102 29 720.2 0 29 103 52 720.2 0 52 104 40 720.2 0 40 105 39 720.2 0 39 106 36 720.2 0 36 107 40 720.2 0 40 108 34 720.2 0 34 109 41 720.2 0 41 110 38 720.2 0 38 111 79 720.2 0 79 112 45 720.2 0 45 113 34 720.2 0 34 114 31 720.2 0 31 115 35 720.2 0 35 116 34 720.2 0 34 117 60 720.2 0 60 118 66 720.2 0 66 119 95 720.2 0 95 120 105 720.2 0 105 121 273 720.2 0 273 122 194 720.2 0 194 123 54 720.2 0 54 124 92 720.2 0 92 125 86 720.2 0 86 126 75 720.2 0 75 127 171 720.2 0 171 128 317 720.2 0 317 129 351 720.2 0 351 130 83 720.2 0 83 131 134 720.2 0 134 132 48 720.2 0 48 133 66 720.2 0 66 134 52 720.2 0 52 135 70 720.2 0 70 136 47 720.2 0 47 137 55 720.2 0 55 138 59 720.2 0 59 139 65 720.2 0 65 140 59 720.2 0 59 141 59 720.2 0 59 142 57 720.2 0 57 143 82 720.2 0 82 144 212 720.2 0 212 145 162 720.2 0 162 146 429 720.2 0 429 147 63 720.2 0 63 148 95 720.2 0 95 149 144 720.2 0 144 150 90 720.2 0 90 151 37 720.2 0 37 152 38 720.2 0 38 153 48 720.2 0 48 154 58 720.2 0 58 155 43 720.2 0 43 156 37 720.2 0 37 157 34 720.2 0 34 158 37 720.2 0 37 159 42 720.2 0 42 160 38 720.2 0 38 161 47 720.2 0 47 162 82 720.2 0 82 163 55 720.2 0 55 164 79 720.2 0 79 165 71 720.2 0 71 166 64 720.2 0 64 167 182 720.2 0 182 168 83 720.2 0 83 169 71 720.2 0 71 170 68 720.2 0 68 171 107 720.2 0 107 172 79 720.2 0 79 173 111 720.2 0 111 174 195 720.2 0 195 175 349 720.2 0 349 176 116 720.2 0 116 177 142 720.2 0 142 178 199 720.2 0 199 179 105 720.2 0 105 180 118 720.2 0 118 181 194 720.2 0 194 182 266 720.2 0 266 183 266 720.2 0 266 184 431 720.2 0 431 185 407 720.2 0 407 186 461 720.2 0 461 187 461 720.2 0 461 188 5448 720.2 0 5448 189 40210 720.2 0 40210 190 11735 720.2 0 11735 191 740 720.2 0 740 192 361 720.2 0 361 193 146 720.2 0 146 194 206 720.2 0 206 195 72 720.2 0 72 196 182 720.2 0 182 197 79 720.2 0 79 198 42 720.2 0 42 199 51 720.2 0 51 200 36 720.2 0 36 201 138 720.2 0 138 202 393 720.2 0 393 203 56 720.2 0 56 204 97 720.2 0 97 205 73 720.2 0 73 206 1449 720.2 0 1449 207 809 720.2 0 809 208 1153 720.2 0 1153 209 49 720.2 0 49 210 35 720.2 0 35 211 107 720.2 0 107 212 284 720.2 0 284 213 289 720.2 0 289 214 123 720.2 0 123 215 88 720.2 0 88 216 41 720.2 0 41 217 35 720.2 0 35 218 29 720.2 0 29 219 33 720.2 0 33 220 22 720.2 0 22 221 37 720.2 0 37 222 89 720.2 0 89 223 113 720.2 0 113 224 25 720.2 0 25 225 92 720.2 0 92 226 67 720.2 0 67 227 123 720.2 0 123 228 45 720.2 0 45 229 74 720.2 0 74 230 98 720.2 0 98 231 87 720.2 0 87 232 33 720.2 0 33 233 35 720.2 0 35 234 36 720.2 0 36 235 54 720.2 0 54 236 44 720.2 0 44 237 35 720.2 0 35 238 37 720.2 0 37 239 24 720.2 0 24 240 34 720.2 0 34 241 52 720.2 0 52 242 50 720.2 0 50 243 37 720.2 0 37 244 39 720.2 0 39 245 44 720.2 0 44 246 32 720.2 0 32 247 49 720.2 0 49 248 47 720.2 0 47 249 40 720.2 0 40 250 46 720.2 0 46 251 56 720.2 0 56 252 66 720.2 0 66 253 55 720.2 0 55 254 51 720.2 0 51 255 77 720.2 0 77 256 79 720.2 0 79 257 100 720.2 0 100 258 89 720.2 0 89 259 77 720.2 0 77 260 81 720.2 0 81 261 61 720.2 0 61 262 73 720.2 0 73 263 65 720.2 0 65 264 54 720.2 0 54 265 46 720.2 0 46 266 70 720.2 0 70 267 79 720.2 0 79 268 143 720.2 0 143 269 264 720.2 0 264 270 268 720.2 0 268 271 670 720.2 0 670 272 1824 720.2 0 1824 273 1272 720.2 0 1272 274 678 720.2 0 678 275 81 720.2 0 81 276 43 720.2 0 43 277 48 720.2 0 48 278 64 720.2 0 64 279 82 720.2 0 82 280 75 720.2 0 75 281 86 720.2 0 86 282 602 720.2 0 602 283 1746 720.2 0 1746 284 887 720.2 0 887 285 54 720.2 0 54 286 42 720.2 0 42 287 61 720.2 0 61 288 70 720.2 0 70 289 60 720.2 0 60 290 64 720.2 0 64 291 117 720.2 0 117 292 303 720.2 0 303 293 310 720.2 0 310 294 517 720.2 0 517 295 133 720.2 0 133 296 68 720.2 0 68 297 69 720.2 0 69 298 51 720.2 0 51 299 65 720.2 0 65 300 93 720.2 0 93 301 167 720.2 0 167 Finished in 17.64 s (69 us/read; 0.86 M reads/minute). === Summary === Total reads processed: 253,894 Reads with adapters: 61,987 (24.4%) Reads that were too short: 118 (0.0%) Reads written (passing filters): 61,869 (24.4%) Total basepairs processed: 57,064,484 bp Total written (filtered): 16,782,501 bp (29.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 61987 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 17 0.0 3 0 0 0 1 16 18 14 0.0 3 0 0 14 19 493 0.0 3 0 475 13 1 4 20 60110 0.0 4 59124 953 29 3 1 21 165 0.0 4 43 119 2 0 1 22 20 0.0 4 7 1 10 1 1 23 30 0.0 4 1 0 0 27 2 24 3 0.0 4 0 0 0 0 3 26 1 0.0 4 0 0 0 0 1 28 1 0.0 4 0 0 0 1 29 1 0.0 4 1 30 2 0.0 4 1 0 0 0 1 40 1 0.0 4 1 53 1 0.0 4 1 55 38 0.0 4 0 0 0 0 38 62 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 92 2 0.0 4 1 0 0 0 1 104 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 126 7 0.0 4 0 0 0 0 7 127 954 0.0 4 0 0 0 0 954 128 3 0.0 4 0 0 0 0 3 129 2 0.0 4 0 0 0 0 2 130 6 0.0 4 0 0 0 0 6 131 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 0 1 155 61 0.0 4 0 0 0 3 58 156 21 0.0 4 0 0 0 2 19 157 5 0.0 4 0 0 0 0 5 161 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 172 2 0.0 4 1 0 0 0 1 179 1 0.0 4 1 191 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 224 1 0.0 4 0 0 1 228 3 0.0 4 0 0 0 0 3 229 2 0.0 4 0 0 0 0 2 234 1 0.0 4 0 0 0 0 1 236 2 0.0 4 0 0 0 1 1 237 1 0.0 4 0 0 0 0 1 257 1 0.0 4 0 1 258 1 0.0 4 0 0 0 0 1 271 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 3.38 s (55 us/read; 1.10 M reads/minute). === Summary === Total reads processed: 61,869 Reads with adapters: 5,086 (8.2%) Reads written (passing filters): 61,869 (100.0%) Total basepairs processed: 16,782,501 bp Total written (filtered): 16,725,518 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5086 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 0.8% C: 2.3% G: 95.5% T: 1.5% 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 36 966.7 0 36 4 7 241.7 0 7 5 1 60.4 0 1 8 1 0.9 0 1 9 45 0.2 0 1 44 10 202 0.1 1 4 198 11 4768 0.0 1 16 4752 12 12 0.0 1 0 12 14 1 0.0 1 0 1 15 1 0.0 1 0 1 16 1 0.0 1 0 1 17 1 0.0 1 1 63 1 0.0 1 1 151 1 0.0 1 0 1 170 2 0.0 1 2 200 5 0.0 1 5 201 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.