This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCCTC -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 66.32 s (27 us/read; 2.21 M reads/minute). === Summary === Total reads processed: 2,442,494 Reads with adapters: 193,554 (7.9%) Reads that were too short: 18,062 (0.7%) Reads written (passing filters): 175,492 (7.2%) Total basepairs processed: 735,190,694 bp Total written (filtered): 40,745,044 bp (5.5%) === Adapter 1 === Sequence: AGCCTC; Type: regular 5'; Length: 6; Trimmed: 193554 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 968 596.3 0 968 7 19183 596.3 0 19183 8 15738 596.3 0 15738 9 80 596.3 0 80 10 175 596.3 0 175 11 86 596.3 0 86 12 154 596.3 0 154 13 97 596.3 0 97 14 56 596.3 0 56 15 56 596.3 0 56 16 66 596.3 0 66 17 54 596.3 0 54 18 72 596.3 0 72 19 87 596.3 0 87 20 89 596.3 0 89 21 70 596.3 0 70 22 92 596.3 0 92 23 73 596.3 0 73 24 62 596.3 0 62 25 57 596.3 0 57 26 96 596.3 0 96 27 64 596.3 0 64 28 105 596.3 0 105 29 253 596.3 0 253 30 47 596.3 0 47 31 55 596.3 0 55 32 48 596.3 0 48 33 56 596.3 0 56 34 47 596.3 0 47 35 47 596.3 0 47 36 76 596.3 0 76 37 74 596.3 0 74 38 150 596.3 0 150 39 356 596.3 0 356 40 106 596.3 0 106 41 177 596.3 0 177 42 106 596.3 0 106 43 110 596.3 0 110 44 321 596.3 0 321 45 154 596.3 0 154 46 179 596.3 0 179 47 112 596.3 0 112 48 97 596.3 0 97 49 227 596.3 0 227 50 253 596.3 0 253 51 382 596.3 0 382 52 617 596.3 0 617 53 639 596.3 0 639 54 1244 596.3 0 1244 55 2799 596.3 0 2799 56 29415 596.3 0 29415 57 24707 596.3 0 24707 58 35769 596.3 0 35769 59 181 596.3 0 181 60 57 596.3 0 57 61 67 596.3 0 67 62 246 596.3 0 246 63 132 596.3 0 132 64 232 596.3 0 232 65 51 596.3 0 51 66 65 596.3 0 65 67 82 596.3 0 82 68 60 596.3 0 60 69 54 596.3 0 54 70 75 596.3 0 75 71 58 596.3 0 58 72 71 596.3 0 71 73 65 596.3 0 65 74 79 596.3 0 79 75 72 596.3 0 72 76 55 596.3 0 55 77 43 596.3 0 43 78 34 596.3 0 34 79 70 596.3 0 70 80 72 596.3 0 72 81 135 596.3 0 135 82 65 596.3 0 65 83 158 596.3 0 158 84 89 596.3 0 89 85 107 596.3 0 107 86 95 596.3 0 95 87 84 596.3 0 84 88 178 596.3 0 178 89 200 596.3 0 200 90 68 596.3 0 68 91 49 596.3 0 49 92 43 596.3 0 43 93 38 596.3 0 38 94 45 596.3 0 45 95 37 596.3 0 37 96 56 596.3 0 56 97 54 596.3 0 54 98 49 596.3 0 49 99 54 596.3 0 54 100 56 596.3 0 56 101 57 596.3 0 57 102 48 596.3 0 48 103 137 596.3 0 137 104 165 596.3 0 165 105 190 596.3 0 190 106 51 596.3 0 51 107 46 596.3 0 46 108 44 596.3 0 44 109 49 596.3 0 49 110 59 596.3 0 59 111 48 596.3 0 48 112 50 596.3 0 50 113 60 596.3 0 60 114 60 596.3 0 60 115 36 596.3 0 36 116 45 596.3 0 45 117 48 596.3 0 48 118 60 596.3 0 60 119 69 596.3 0 69 120 61 596.3 0 61 121 52 596.3 0 52 122 58 596.3 0 58 123 73 596.3 0 73 124 508 596.3 0 508 125 421 596.3 0 421 126 903 596.3 0 903 127 118 596.3 0 118 128 136 596.3 0 136 129 43 596.3 0 43 130 78 596.3 0 78 131 66 596.3 0 66 132 78 596.3 0 78 133 69 596.3 0 69 134 64 596.3 0 64 135 68 596.3 0 68 136 48 596.3 0 48 137 58 596.3 0 58 138 70 596.3 0 70 139 69 596.3 0 69 140 90 596.3 0 90 141 143 596.3 0 143 142 105 596.3 0 105 143 236 596.3 0 236 144 92 596.3 0 92 145 141 596.3 0 141 146 275 596.3 0 275 147 1934 596.3 0 1934 148 1640 596.3 0 1640 149 1780 596.3 0 1780 150 921 596.3 0 921 151 387 596.3 0 387 152 477 596.3 0 477 153 119 596.3 0 119 154 159 596.3 0 159 155 86 596.3 0 86 156 101 596.3 0 101 157 90 596.3 0 90 158 87 596.3 0 87 159 119 596.3 0 119 160 890 596.3 0 890 161 276 596.3 0 276 162 885 596.3 0 885 163 88 596.3 0 88 164 114 596.3 0 114 165 397 596.3 0 397 166 278 596.3 0 278 167 1996 596.3 0 1996 168 1357 596.3 0 1357 169 2344 596.3 0 2344 170 144 596.3 0 144 171 188 596.3 0 188 172 233 596.3 0 233 173 307 596.3 0 307 174 163 596.3 0 163 175 385 596.3 0 385 176 449 596.3 0 449 177 508 596.3 0 508 178 243 596.3 0 243 179 85 596.3 0 85 180 89 596.3 0 89 181 99 596.3 0 99 182 108 596.3 0 108 183 153 596.3 0 153 184 75 596.3 0 75 185 121 596.3 0 121 186 141 596.3 0 141 187 381 596.3 0 381 188 195 596.3 0 195 189 128 596.3 0 128 190 116 596.3 0 116 191 124 596.3 0 124 192 186 596.3 0 186 193 232 596.3 0 232 194 222 596.3 0 222 195 496 596.3 0 496 196 702 596.3 0 702 197 642 596.3 0 642 198 293 596.3 0 293 199 423 596.3 0 423 200 3702 596.3 0 3702 201 2405 596.3 0 2405 202 3769 596.3 0 3769 203 219 596.3 0 219 204 71 596.3 0 71 205 61 596.3 0 61 206 56 596.3 0 56 207 65 596.3 0 65 208 59 596.3 0 59 209 68 596.3 0 68 210 38 596.3 0 38 211 51 596.3 0 51 212 50 596.3 0 50 213 57 596.3 0 57 214 64 596.3 0 64 215 67 596.3 0 67 216 68 596.3 0 68 217 58 596.3 0 58 218 71 596.3 0 71 219 145 596.3 0 145 220 154 596.3 0 154 221 224 596.3 0 224 222 98 596.3 0 98 223 46 596.3 0 46 224 45 596.3 0 45 225 58 596.3 0 58 226 60 596.3 0 60 227 66 596.3 0 66 228 87 596.3 0 87 229 282 596.3 0 282 230 250 596.3 0 250 231 366 596.3 0 366 232 591 596.3 0 591 233 370 596.3 0 370 234 564 596.3 0 564 235 49 596.3 0 49 236 52 596.3 0 52 237 61 596.3 0 61 238 63 596.3 0 63 239 87 596.3 0 87 240 115 596.3 0 115 241 124 596.3 0 124 242 90 596.3 0 90 243 76 596.3 0 76 244 50 596.3 0 50 245 51 596.3 0 51 246 83 596.3 0 83 247 115 596.3 0 115 248 138 596.3 0 138 249 124 596.3 0 124 250 99 596.3 0 99 251 67 596.3 0 67 252 65 596.3 0 65 253 44 596.3 0 44 254 37 596.3 0 37 255 52 596.3 0 52 256 70 596.3 0 70 257 108 596.3 0 108 258 88 596.3 0 88 259 57 596.3 0 57 260 63 596.3 0 63 261 155 596.3 0 155 262 83 596.3 0 83 263 96 596.3 0 96 264 113 596.3 0 113 265 81 596.3 0 81 266 79 596.3 0 79 267 93 596.3 0 93 268 249 596.3 0 249 269 332 596.3 0 332 270 332 596.3 0 332 271 186 596.3 0 186 272 88 596.3 0 88 273 106 596.3 0 106 274 93 596.3 0 93 275 170 596.3 0 170 276 170 596.3 0 170 277 176 596.3 0 176 278 235 596.3 0 235 279 570 596.3 0 570 280 217 596.3 0 217 281 329 596.3 0 329 282 377 596.3 0 377 283 359 596.3 0 359 284 164 596.3 0 164 285 61 596.3 0 61 286 46 596.3 0 46 287 98 596.3 0 98 288 162 596.3 0 162 289 247 596.3 0 247 290 115 596.3 0 115 291 137 596.3 0 137 292 170 596.3 0 170 293 291 596.3 0 291 294 300 596.3 0 300 295 267 596.3 0 267 296 120 596.3 0 120 297 80 596.3 0 80 298 63 596.3 0 63 299 77 596.3 0 77 300 191 596.3 0 191 301 458 596.3 0 458 Finished in 7.93 s (45 us/read; 1.33 M reads/minute). === Summary === Total reads processed: 175,492 Reads with adapters: 16,671 (9.5%) Reads that were too short: 41 (0.0%) Reads written (passing filters): 16,630 (9.5%) Total basepairs processed: 40,745,044 bp Total written (filtered): 4,509,515 bp (11.1%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 16671 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 12 0.0 3 0 0 8 2 2 19 204 0.0 3 0 160 23 16 5 20 15844 0.0 4 14906 783 117 29 9 21 57 0.0 4 8 41 4 2 2 22 5 0.0 4 1 2 2 23 206 0.0 4 157 8 3 24 14 24 5 0.0 4 2 1 0 0 2 26 12 0.0 4 0 0 0 1 11 28 1 0.0 4 0 0 0 0 1 33 1 0.0 4 1 37 1 0.0 4 0 0 0 0 1 43 1 0.0 4 0 0 0 0 1 44 2 0.0 4 0 0 0 0 2 46 4 0.0 4 0 0 0 0 4 51 1 0.0 4 1 53 1 0.0 4 0 0 0 0 1 58 1 0.0 4 0 0 0 0 1 69 3 0.0 4 0 0 0 1 2 70 1 0.0 4 0 0 0 0 1 79 9 0.0 4 0 0 0 0 9 82 2 0.0 4 0 0 0 0 2 92 1 0.0 4 0 0 0 0 1 101 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 122 14 0.0 4 0 0 0 0 14 123 5 0.0 4 0 0 0 0 5 125 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 232 0.0 4 0 0 0 0 232 128 1 0.0 4 0 0 0 0 1 135 4 0.0 4 0 0 0 0 4 136 1 0.0 4 0 0 0 0 1 143 1 0.0 4 0 0 1 160 1 0.0 4 0 0 0 1 202 10 0.0 4 0 0 0 0 10 207 1 0.0 4 0 0 0 0 1 221 2 0.0 4 0 0 0 0 2 223 1 0.0 4 0 0 0 0 1 228 4 0.0 4 0 0 0 1 3 229 1 0.0 4 0 0 0 0 1 232 3 0.0 4 0 0 0 0 3 234 2 0.0 4 0 0 0 0 2 236 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 258 1 0.0 4 0 0 0 0 1 283 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 0.58 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 16,630 Reads with adapters: 2,286 (13.7%) Reads written (passing filters): 16,630 (100.0%) Total basepairs processed: 4,509,515 bp Total written (filtered): 4,457,532 bp (98.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2286 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 2.8% C: 16.0% G: 78.5% T: 2.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 48 259.8 0 48 4 4 65.0 0 4 6 1 4.1 0 1 8 2 0.3 0 2 9 115 0.1 0 13 102 10 382 0.0 1 29 353 11 1387 0.0 1 63 1324 12 84 0.0 1 1 83 13 3 0.0 1 0 3 14 5 0.0 1 0 5 15 2 0.0 1 0 2 89 1 0.0 1 1 90 154 0.0 1 129 25 91 5 0.0 1 4 1 92 3 0.0 1 1 2 157 8 0.0 1 6 2 159 1 0.0 1 1 177 60 0.0 1 53 7 178 1 0.0 1 1 179 1 0.0 1 0 1 180 18 0.0 1 18 230 1 0.0 1 0 1