This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GACGGC -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 147.59 s (47 us/read; 1.29 M reads/minute). === Summary === Total reads processed: 3,166,434 Reads with adapters: 669,131 (21.1%) Reads that were too short: 41,162 (1.3%) Reads written (passing filters): 627,969 (19.8%) Total basepairs processed: 953,096,634 bp Total written (filtered): 133,980,358 bp (14.1%) === Adapter 1 === Sequence: GACGGC; Type: regular 5'; Length: 6; Trimmed: 669131 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 3816 773.1 0 3816 7 44183 773.1 0 44183 8 371 773.1 0 371 9 35071 773.1 0 35071 10 107 773.1 0 107 11 60 773.1 0 60 12 57 773.1 0 57 13 47 773.1 0 47 14 71 773.1 0 71 15 87 773.1 0 87 16 90 773.1 0 90 17 96 773.1 0 96 18 78 773.1 0 78 19 115 773.1 0 115 20 126 773.1 0 126 21 100 773.1 0 100 22 97 773.1 0 97 23 95 773.1 0 95 24 98 773.1 0 98 25 89 773.1 0 89 26 76 773.1 0 76 27 88 773.1 0 88 28 85 773.1 0 85 29 80 773.1 0 80 30 90 773.1 0 90 31 85 773.1 0 85 32 74 773.1 0 74 33 75 773.1 0 75 34 125 773.1 0 125 35 136 773.1 0 136 36 114 773.1 0 114 37 78 773.1 0 78 38 77 773.1 0 77 39 66 773.1 0 66 40 103 773.1 0 103 41 272 773.1 0 272 42 215 773.1 0 215 43 180 773.1 0 180 44 102 773.1 0 102 45 157 773.1 0 157 46 130 773.1 0 130 47 168 773.1 0 168 48 82 773.1 0 82 49 166 773.1 0 166 50 203 773.1 0 203 51 290 773.1 0 290 52 82 773.1 0 82 53 260 773.1 0 260 54 96 773.1 0 96 55 131 773.1 0 131 56 99 773.1 0 99 57 90 773.1 0 90 58 140 773.1 0 140 59 229 773.1 0 229 60 411 773.1 0 411 61 745 773.1 0 745 62 521 773.1 0 521 63 174 773.1 0 174 64 111 773.1 0 111 65 198 773.1 0 198 66 159 773.1 0 159 67 259 773.1 0 259 68 335 773.1 0 335 69 558 773.1 0 558 70 861 773.1 0 861 71 1658 773.1 0 1658 72 2809 773.1 0 2809 73 816 773.1 0 816 74 603 773.1 0 603 75 1202 773.1 0 1202 76 479 773.1 0 479 77 508 773.1 0 508 78 1082 773.1 0 1082 79 932 773.1 0 932 80 1259 773.1 0 1259 81 1305 773.1 0 1305 82 2368 773.1 0 2368 83 3132 773.1 0 3132 84 4081 773.1 0 4081 85 155948 773.1 0 155948 86 109148 773.1 0 109148 87 150968 773.1 0 150968 88 552 773.1 0 552 89 76 773.1 0 76 90 124 773.1 0 124 91 89 773.1 0 89 92 74 773.1 0 74 93 86 773.1 0 86 94 74 773.1 0 74 95 94 773.1 0 94 96 85 773.1 0 85 97 86 773.1 0 86 98 72 773.1 0 72 99 68 773.1 0 68 100 63 773.1 0 63 101 63 773.1 0 63 102 50 773.1 0 50 103 81 773.1 0 81 104 53 773.1 0 53 105 73 773.1 0 73 106 85 773.1 0 85 107 96 773.1 0 96 108 76 773.1 0 76 109 97 773.1 0 97 110 89 773.1 0 89 111 71 773.1 0 71 112 57 773.1 0 57 113 77 773.1 0 77 114 81 773.1 0 81 115 72 773.1 0 72 116 63 773.1 0 63 117 61 773.1 0 61 118 79 773.1 0 79 119 59 773.1 0 59 120 73 773.1 0 73 121 77 773.1 0 77 122 78 773.1 0 78 123 85 773.1 0 85 124 109 773.1 0 109 125 79 773.1 0 79 126 78 773.1 0 78 127 59 773.1 0 59 128 104 773.1 0 104 129 95 773.1 0 95 130 144 773.1 0 144 131 180 773.1 0 180 132 140 773.1 0 140 133 107 773.1 0 107 134 80 773.1 0 80 135 111 773.1 0 111 136 102 773.1 0 102 137 81 773.1 0 81 138 94 773.1 0 94 139 83 773.1 0 83 140 83 773.1 0 83 141 82 773.1 0 82 142 110 773.1 0 110 143 109 773.1 0 109 144 74 773.1 0 74 145 89 773.1 0 89 146 104 773.1 0 104 147 107 773.1 0 107 148 122 773.1 0 122 149 1190 773.1 0 1190 150 620 773.1 0 620 151 840 773.1 0 840 152 1038 773.1 0 1038 153 1708 773.1 0 1708 154 1383 773.1 0 1383 155 1066 773.1 0 1066 156 213 773.1 0 213 157 142 773.1 0 142 158 108 773.1 0 108 159 131 773.1 0 131 160 162 773.1 0 162 161 194 773.1 0 194 162 351 773.1 0 351 163 173 773.1 0 173 164 217 773.1 0 217 165 497 773.1 0 497 166 210 773.1 0 210 167 159 773.1 0 159 168 464 773.1 0 464 169 376 773.1 0 376 170 507 773.1 0 507 171 468 773.1 0 468 172 571 773.1 0 571 173 691 773.1 0 691 174 1033 773.1 0 1033 175 23502 773.1 0 23502 176 20922 773.1 0 20922 177 29485 773.1 0 29485 178 149 773.1 0 149 179 74 773.1 0 74 180 55 773.1 0 55 181 120 773.1 0 120 182 114 773.1 0 114 183 97 773.1 0 97 184 57 773.1 0 57 185 55 773.1 0 55 186 81 773.1 0 81 187 74 773.1 0 74 188 62 773.1 0 62 189 70 773.1 0 70 190 76 773.1 0 76 191 84 773.1 0 84 192 50 773.1 0 50 193 65 773.1 0 65 194 70 773.1 0 70 195 72 773.1 0 72 196 82 773.1 0 82 197 81 773.1 0 81 198 68 773.1 0 68 199 59 773.1 0 59 200 64 773.1 0 64 201 76 773.1 0 76 202 58 773.1 0 58 203 61 773.1 0 61 204 78 773.1 0 78 205 92 773.1 0 92 206 112 773.1 0 112 207 107 773.1 0 107 208 119 773.1 0 119 209 176 773.1 0 176 210 206 773.1 0 206 211 288 773.1 0 288 212 417 773.1 0 417 213 11459 773.1 0 11459 214 4641 773.1 0 4641 215 9961 773.1 0 9961 216 96 773.1 0 96 217 143 773.1 0 143 218 257 773.1 0 257 219 160 773.1 0 160 220 175 773.1 0 175 221 93 773.1 0 93 222 56 773.1 0 56 223 46 773.1 0 46 224 55 773.1 0 55 225 75 773.1 0 75 226 67 773.1 0 67 227 75 773.1 0 75 228 166 773.1 0 166 229 127 773.1 0 127 230 194 773.1 0 194 231 993 773.1 0 993 232 456 773.1 0 456 233 681 773.1 0 681 234 88 773.1 0 88 235 73 773.1 0 73 236 87 773.1 0 87 237 69 773.1 0 69 238 60 773.1 0 60 239 56 773.1 0 56 240 75 773.1 0 75 241 55 773.1 0 55 242 63 773.1 0 63 243 54 773.1 0 54 244 51 773.1 0 51 245 62 773.1 0 62 246 105 773.1 0 105 247 76 773.1 0 76 248 92 773.1 0 92 249 107 773.1 0 107 250 96 773.1 0 96 251 89 773.1 0 89 252 76 773.1 0 76 253 229 773.1 0 229 254 318 773.1 0 318 255 239 773.1 0 239 256 206 773.1 0 206 257 183 773.1 0 183 258 182 773.1 0 182 259 116 773.1 0 116 260 92 773.1 0 92 261 89 773.1 0 89 262 90 773.1 0 90 263 62 773.1 0 62 264 72 773.1 0 72 265 58 773.1 0 58 266 62 773.1 0 62 267 83 773.1 0 83 268 78 773.1 0 78 269 66 773.1 0 66 270 74 773.1 0 74 271 75 773.1 0 75 272 88 773.1 0 88 273 62 773.1 0 62 274 88 773.1 0 88 275 70 773.1 0 70 276 123 773.1 0 123 277 607 773.1 0 607 278 681 773.1 0 681 279 923 773.1 0 923 280 80 773.1 0 80 281 62 773.1 0 62 282 68 773.1 0 68 283 68 773.1 0 68 284 48 773.1 0 48 285 244 773.1 0 244 286 228 773.1 0 228 287 231 773.1 0 231 288 122 773.1 0 122 289 111 773.1 0 111 290 108 773.1 0 108 291 76 773.1 0 76 292 98 773.1 0 98 293 129 773.1 0 129 294 172 773.1 0 172 295 100 773.1 0 100 296 119 773.1 0 119 297 236 773.1 0 236 298 258 773.1 0 258 299 237 773.1 0 237 300 136 773.1 0 136 301 91 773.1 0 91 Finished in 38.14 s (61 us/read; 0.99 M reads/minute). === Summary === Total reads processed: 627,969 Reads with adapters: 44,762 (7.1%) Reads that were too short: 141 (0.0%) Reads written (passing filters): 44,621 (7.1%) Total basepairs processed: 133,980,358 bp Total written (filtered): 12,209,446 bp (9.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 44762 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 3 0.0 3 0 0 0 2 1 18 4 0.0 3 0 0 3 0 1 19 149 0.0 3 0 142 4 2 1 20 44184 0.0 4 43537 616 30 1 21 72 0.0 4 6 66 22 7 0.0 4 5 0 2 23 23 0.0 4 1 0 0 18 4 34 1 0.0 4 1 44 1 0.0 4 0 0 0 0 1 49 68 0.0 4 0 0 0 0 68 50 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 57 4 0.0 4 0 0 0 0 4 62 1 0.0 4 0 0 0 0 1 66 1 0.0 4 1 67 2 0.0 4 0 0 0 0 2 68 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 1 76 1 0.0 4 0 0 0 0 1 77 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 82 1 0.0 4 0 0 0 0 1 91 6 0.0 4 0 0 0 0 6 96 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 103 1 0.0 4 0 1 115 3 0.0 4 1 0 0 0 2 127 82 0.0 4 0 0 0 0 82 129 17 0.0 4 1 0 0 0 16 136 2 0.0 4 0 0 0 0 2 148 1 0.0 4 0 0 0 0 1 150 35 0.0 4 0 0 0 0 35 151 13 0.0 4 0 0 0 0 13 152 1 0.0 4 0 0 0 0 1 155 2 0.0 4 0 0 0 0 2 156 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 1 173 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 180 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 1 182 7 0.0 4 0 0 0 0 7 184 5 0.0 4 0 0 0 0 5 185 9 0.0 4 0 0 0 0 9 186 8 0.0 4 0 0 0 1 7 187 6 0.0 4 0 0 0 1 5 191 1 0.0 4 0 0 0 0 1 200 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 205 1 0.0 4 0 0 0 0 1 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 213 1 0.0 4 0 0 0 0 1 214 2 0.0 4 0 0 0 0 2 215 3 0.0 4 0 0 0 0 3 216 3 0.0 4 0 0 0 0 3 224 4 0.0 4 0 0 0 0 4 225 2 0.0 4 0 0 0 0 2 226 1 0.0 4 0 0 0 0 1 228 3 0.0 4 0 0 0 0 3 263 1 0.0 4 0 0 0 0 1 282 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 2.42 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 44,621 Reads with adapters: 1,098 (2.5%) Reads written (passing filters): 44,621 (100.0%) Total basepairs processed: 12,209,446 bp Total written (filtered): 12,196,391 bp (99.9%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1098 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 4.0% C: 3.2% G: 91.0% 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 46 697.2 0 46 4 5 174.3 0 5 9 5 0.2 0 2 3 10 5 0.0 1 0 5 11 955 0.0 1 2 953 12 33 0.0 1 4 29 13 32 0.0 1 14 18 14 6 0.0 1 5 1 15 1 0.0 1 0 1 19 2 0.0 1 1 1 152 5 0.0 1 0 5 153 1 0.0 1 0 1 210 1 0.0 1 0 1 225 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.