This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GAAGCT -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 88.37 s (26 us/read; 2.35 M reads/minute). === Summary === Total reads processed: 3,465,239 Reads with adapters: 249,762 (7.2%) Reads that were too short: 11,436 (0.3%) Reads written (passing filters): 238,326 (6.9%) Total basepairs processed: 1,043,036,939 bp Total written (filtered): 54,353,518 bp (5.2%) === Adapter 1 === Sequence: GAAGCT; Type: regular 5'; Length: 6; Trimmed: 249762 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 262 846.0 0 262 7 1103 846.0 0 1103 8 31324 846.0 0 31324 9 21734 846.0 0 21734 10 78 846.0 0 78 11 53 846.0 0 53 12 22 846.0 0 22 13 34 846.0 0 34 14 38 846.0 0 38 15 27 846.0 0 27 16 38 846.0 0 38 17 34 846.0 0 34 18 31 846.0 0 31 19 34 846.0 0 34 20 31 846.0 0 31 21 32 846.0 0 32 22 34 846.0 0 34 23 34 846.0 0 34 24 18 846.0 0 18 25 83 846.0 0 83 26 49 846.0 0 49 27 35 846.0 0 35 28 43 846.0 0 43 29 39 846.0 0 39 30 35 846.0 0 35 31 29 846.0 0 29 32 33 846.0 0 33 33 36 846.0 0 36 34 86 846.0 0 86 35 42 846.0 0 42 36 42 846.0 0 42 37 53 846.0 0 53 38 37 846.0 0 37 39 41 846.0 0 41 40 27 846.0 0 27 41 41 846.0 0 41 42 33 846.0 0 33 43 34 846.0 0 34 44 37 846.0 0 37 45 40 846.0 0 40 46 48 846.0 0 48 47 24 846.0 0 24 48 39 846.0 0 39 49 38 846.0 0 38 50 23 846.0 0 23 51 43 846.0 0 43 52 45 846.0 0 45 53 70 846.0 0 70 54 132 846.0 0 132 55 63 846.0 0 63 56 39 846.0 0 39 57 30 846.0 0 30 58 25 846.0 0 25 59 24 846.0 0 24 60 54 846.0 0 54 61 54 846.0 0 54 62 47 846.0 0 47 63 68 846.0 0 68 64 206 846.0 0 206 65 57 846.0 0 57 66 113 846.0 0 113 67 87 846.0 0 87 68 48 846.0 0 48 69 79 846.0 0 79 70 86 846.0 0 86 71 84 846.0 0 84 72 58 846.0 0 58 73 78 846.0 0 78 74 98 846.0 0 98 75 156 846.0 0 156 76 378 846.0 0 378 77 345 846.0 0 345 78 620 846.0 0 620 79 1185 846.0 0 1185 80 1052 846.0 0 1052 81 19030 846.0 0 19030 82 111359 846.0 0 111359 83 5763 846.0 0 5763 84 83 846.0 0 83 85 86 846.0 0 86 86 68 846.0 0 68 87 211 846.0 0 211 88 44 846.0 0 44 89 40 846.0 0 40 90 36 846.0 0 36 91 49 846.0 0 49 92 37 846.0 0 37 93 61 846.0 0 61 94 40 846.0 0 40 95 47 846.0 0 47 96 45 846.0 0 45 97 42 846.0 0 42 98 57 846.0 0 57 99 114 846.0 0 114 100 56 846.0 0 56 101 58 846.0 0 58 102 237 846.0 0 237 103 56 846.0 0 56 104 58 846.0 0 58 105 50 846.0 0 50 106 58 846.0 0 58 107 89 846.0 0 89 108 111 846.0 0 111 109 212 846.0 0 212 110 107 846.0 0 107 111 145 846.0 0 145 112 182 846.0 0 182 113 85 846.0 0 85 114 88 846.0 0 88 115 142 846.0 0 142 116 142 846.0 0 142 117 146 846.0 0 146 118 166 846.0 0 166 119 422 846.0 0 422 120 274 846.0 0 274 121 336 846.0 0 336 122 4390 846.0 0 4390 123 3503 846.0 0 3503 124 19042 846.0 0 19042 125 148 846.0 0 148 126 91 846.0 0 91 127 76 846.0 0 76 128 62 846.0 0 62 129 60 846.0 0 60 130 89 846.0 0 89 131 192 846.0 0 192 132 51 846.0 0 51 133 76 846.0 0 76 134 69 846.0 0 69 135 83 846.0 0 83 136 63 846.0 0 63 137 77 846.0 0 77 138 80 846.0 0 80 139 86 846.0 0 86 140 73 846.0 0 73 141 106 846.0 0 106 142 110 846.0 0 110 143 158 846.0 0 158 144 745 846.0 0 745 145 460 846.0 0 460 146 454 846.0 0 454 147 354 846.0 0 354 148 63 846.0 0 63 149 87 846.0 0 87 150 66 846.0 0 66 151 111 846.0 0 111 152 102 846.0 0 102 153 88 846.0 0 88 154 107 846.0 0 107 155 77 846.0 0 77 156 74 846.0 0 74 157 91 846.0 0 91 158 70 846.0 0 70 159 93 846.0 0 93 160 100 846.0 0 100 161 62 846.0 0 62 162 80 846.0 0 80 163 75 846.0 0 75 164 63 846.0 0 63 165 65 846.0 0 65 166 60 846.0 0 60 167 76 846.0 0 76 168 111 846.0 0 111 169 103 846.0 0 103 170 76 846.0 0 76 171 197 846.0 0 197 172 92 846.0 0 92 173 83 846.0 0 83 174 70 846.0 0 70 175 87 846.0 0 87 176 66 846.0 0 66 177 91 846.0 0 91 178 84 846.0 0 84 179 71 846.0 0 71 180 70 846.0 0 70 181 78 846.0 0 78 182 709 846.0 0 709 183 305 846.0 0 305 184 330 846.0 0 330 185 72 846.0 0 72 186 88 846.0 0 88 187 68 846.0 0 68 188 112 846.0 0 112 189 112 846.0 0 112 190 134 846.0 0 134 191 53 846.0 0 53 192 53 846.0 0 53 193 68 846.0 0 68 194 111 846.0 0 111 195 81 846.0 0 81 196 137 846.0 0 137 197 120 846.0 0 120 198 73 846.0 0 73 199 101 846.0 0 101 200 59 846.0 0 59 201 69 846.0 0 69 202 101 846.0 0 101 203 50 846.0 0 50 204 70 846.0 0 70 205 148 846.0 0 148 206 261 846.0 0 261 207 99 846.0 0 99 208 80 846.0 0 80 209 52 846.0 0 52 210 101 846.0 0 101 211 101 846.0 0 101 212 72 846.0 0 72 213 79 846.0 0 79 214 70 846.0 0 70 215 68 846.0 0 68 216 73 846.0 0 73 217 66 846.0 0 66 218 77 846.0 0 77 219 88 846.0 0 88 220 96 846.0 0 96 221 123 846.0 0 123 222 130 846.0 0 130 223 102 846.0 0 102 224 74 846.0 0 74 225 87 846.0 0 87 226 90 846.0 0 90 227 58 846.0 0 58 228 82 846.0 0 82 229 64 846.0 0 64 230 65 846.0 0 65 231 70 846.0 0 70 232 50 846.0 0 50 233 71 846.0 0 71 234 90 846.0 0 90 235 65 846.0 0 65 236 63 846.0 0 63 237 77 846.0 0 77 238 78 846.0 0 78 239 92 846.0 0 92 240 326 846.0 0 326 241 150 846.0 0 150 242 200 846.0 0 200 243 68 846.0 0 68 244 69 846.0 0 69 245 68 846.0 0 68 246 59 846.0 0 59 247 43 846.0 0 43 248 28 846.0 0 28 249 64 846.0 0 64 250 103 846.0 0 103 251 147 846.0 0 147 252 82 846.0 0 82 253 78 846.0 0 78 254 86 846.0 0 86 255 91 846.0 0 91 256 91 846.0 0 91 257 72 846.0 0 72 258 67 846.0 0 67 259 74 846.0 0 74 260 59 846.0 0 59 261 190 846.0 0 190 262 194 846.0 0 194 263 118 846.0 0 118 264 223 846.0 0 223 265 155 846.0 0 155 266 387 846.0 0 387 267 60 846.0 0 60 268 110 846.0 0 110 269 112 846.0 0 112 270 145 846.0 0 145 271 113 846.0 0 113 272 94 846.0 0 94 273 66 846.0 0 66 274 112 846.0 0 112 275 95 846.0 0 95 276 159 846.0 0 159 277 100 846.0 0 100 278 87 846.0 0 87 279 58 846.0 0 58 280 50 846.0 0 50 281 74 846.0 0 74 282 145 846.0 0 145 283 209 846.0 0 209 284 73 846.0 0 73 285 59 846.0 0 59 286 260 846.0 0 260 287 67 846.0 0 67 288 103 846.0 0 103 289 154 846.0 0 154 290 228 846.0 0 228 291 345 846.0 0 345 292 196 846.0 0 196 293 91 846.0 0 91 294 88 846.0 0 88 295 239 846.0 0 239 296 309 846.0 0 309 297 116 846.0 0 116 298 237 846.0 0 237 299 294 846.0 0 294 300 162 846.0 0 162 301 51 846.0 0 51 Finished in 10.32 s (43 us/read; 1.39 M reads/minute). === Summary === Total reads processed: 238,326 Reads with adapters: 22,886 (9.6%) Reads that were too short: 15 (0.0%) Reads written (passing filters): 22,871 (9.6%) Total basepairs processed: 54,353,518 bp Total written (filtered): 6,200,384 bp (11.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 22886 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 0 3 18 16 0.0 3 0 0 16 19 438 0.0 3 0 435 1 0 2 20 21612 0.0 4 21337 264 8 2 1 21 46 0.0 4 5 40 1 22 536 0.0 4 522 3 7 0 4 23 9 0.0 4 0 1 0 7 1 26 2 0.0 4 0 0 0 1 1 27 1 0.0 4 0 1 29 1 0.0 4 0 0 0 0 1 31 1 0.0 4 1 39 1 0.0 4 0 0 0 1 62 2 0.0 4 0 0 0 0 2 66 1 0.0 4 0 0 0 0 1 71 1 0.0 4 0 0 0 0 1 77 14 0.0 4 0 0 0 1 13 78 6 0.0 4 0 0 0 2 4 79 7 0.0 4 0 0 0 1 6 82 1 0.0 4 0 0 0 0 1 83 1 0.0 4 0 0 0 0 1 93 1 0.0 4 0 0 0 0 1 95 2 0.0 4 0 0 0 0 2 99 1 0.0 4 0 0 0 0 1 107 2 0.0 4 0 0 0 0 2 108 1 0.0 4 0 0 0 0 1 120 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 126 2 0.0 4 0 0 0 0 2 127 170 0.0 4 0 0 0 0 170 128 1 0.0 4 0 0 0 0 1 142 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 169 1 0.0 4 0 0 0 0 1 179 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 0.77 s (34 us/read; 1.78 M reads/minute). === Summary === Total reads processed: 22,871 Reads with adapters: 1,278 (5.6%) Reads written (passing filters): 22,871 (100.0%) Total basepairs processed: 6,200,384 bp Total written (filtered): 5,997,135 bp (96.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1278 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 24.9% C: 6.7% G: 67.3% T: 1.2% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 1 357.4 0 1 4 5 89.3 0 5 6 3 5.6 0 3 9 44 0.1 0 3 41 10 362 0.0 1 9 353 11 103 0.0 1 0 103 13 2 0.0 1 0 2 14 1 0.0 1 0 1 138 1 0.0 1 1 208 1 0.0 1 1 228 2 0.0 1 2 229 1 0.0 1 1 230 4 0.0 1 3 1 232 2 0.0 1 2 234 13 0.0 1 12 1 255 1 0.0 1 1 256 63 0.0 1 58 5 257 278 0.0 1 260 18 258 8 0.0 1 8 259 1 0.0 1 1 260 2 0.0 1 2 261 3 0.0 1 3 262 5 0.0 1 5 263 5 0.0 1 4 1 265 36 0.0 1 36 266 1 0.0 1 1 267 56 0.0 1 56 268 1 0.0 1 1 269 255 0.0 1 243 12 270 17 0.0 1 16 1 271 1 0.0 1 1