This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g GGCGCA -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 69.87 s (26 us/read; 2.28 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 382,570 (14.4%) Reads that were too short: 18,934 (0.7%) Reads written (passing filters): 363,636 (13.7%) Total basepairs processed: 800,111,879 bp Total written (filtered): 94,219,856 bp (11.8%) === Adapter 1 === Sequence: GGCGCA; Type: regular 5'; Length: 6; Trimmed: 382570 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1134 649.0 0 1134 7 36934 649.0 0 36934 8 38721 649.0 0 38721 9 249 649.0 0 249 10 224 649.0 0 224 11 122 649.0 0 122 12 138 649.0 0 138 13 344 649.0 0 344 14 394 649.0 0 394 15 345 649.0 0 345 16 293 649.0 0 293 17 555 649.0 0 555 18 644 649.0 0 644 19 1004 649.0 0 1004 20 25844 649.0 0 25844 21 17174 649.0 0 17174 22 30925 649.0 0 30925 23 198 649.0 0 198 24 129 649.0 0 129 25 157 649.0 0 157 26 93 649.0 0 93 27 104 649.0 0 104 28 96 649.0 0 96 29 93 649.0 0 93 30 67 649.0 0 67 31 90 649.0 0 90 32 170 649.0 0 170 33 251 649.0 0 251 34 268 649.0 0 268 35 595 649.0 0 595 36 1231 649.0 0 1231 37 337 649.0 0 337 38 369 649.0 0 369 39 803 649.0 0 803 40 360 649.0 0 360 41 353 649.0 0 353 42 654 649.0 0 654 43 654 649.0 0 654 44 743 649.0 0 743 45 740 649.0 0 740 46 1178 649.0 0 1178 47 1428 649.0 0 1428 48 3054 649.0 0 3054 49 65587 649.0 0 65587 50 43881 649.0 0 43881 51 60304 649.0 0 60304 52 226 649.0 0 226 53 42 649.0 0 42 54 30 649.0 0 30 55 38 649.0 0 38 56 45 649.0 0 45 57 50 649.0 0 50 58 68 649.0 0 68 59 33 649.0 0 33 60 71 649.0 0 71 61 43 649.0 0 43 62 78 649.0 0 78 63 376 649.0 0 376 64 280 649.0 0 280 65 715 649.0 0 715 66 35 649.0 0 35 67 50 649.0 0 50 68 45 649.0 0 45 69 34 649.0 0 34 70 34 649.0 0 34 71 36 649.0 0 36 72 42 649.0 0 42 73 43 649.0 0 43 74 46 649.0 0 46 75 35 649.0 0 35 76 34 649.0 0 34 77 36 649.0 0 36 78 30 649.0 0 30 79 45 649.0 0 45 80 33 649.0 0 33 81 35 649.0 0 35 82 20 649.0 0 20 83 51 649.0 0 51 84 42 649.0 0 42 85 39 649.0 0 39 86 42 649.0 0 42 87 44 649.0 0 44 88 60 649.0 0 60 89 35 649.0 0 35 90 52 649.0 0 52 91 36 649.0 0 36 92 46 649.0 0 46 93 57 649.0 0 57 94 37 649.0 0 37 95 34 649.0 0 34 96 33 649.0 0 33 97 29 649.0 0 29 98 49 649.0 0 49 99 30 649.0 0 30 100 28 649.0 0 28 101 40 649.0 0 40 102 44 649.0 0 44 103 21 649.0 0 21 104 26 649.0 0 26 105 32 649.0 0 32 106 62 649.0 0 62 107 47 649.0 0 47 108 21 649.0 0 21 109 30 649.0 0 30 110 41 649.0 0 41 111 43 649.0 0 43 112 60 649.0 0 60 113 42 649.0 0 42 114 32 649.0 0 32 115 69 649.0 0 69 116 47 649.0 0 47 117 126 649.0 0 126 118 125 649.0 0 125 119 149 649.0 0 149 120 54 649.0 0 54 121 44 649.0 0 44 122 48 649.0 0 48 123 53 649.0 0 53 124 513 649.0 0 513 125 117 649.0 0 117 126 250 649.0 0 250 127 52 649.0 0 52 128 44 649.0 0 44 129 41 649.0 0 41 130 52 649.0 0 52 131 24 649.0 0 24 132 47 649.0 0 47 133 43 649.0 0 43 134 55 649.0 0 55 135 44 649.0 0 44 136 155 649.0 0 155 137 49 649.0 0 49 138 48 649.0 0 48 139 58 649.0 0 58 140 40 649.0 0 40 141 53 649.0 0 53 142 63 649.0 0 63 143 56 649.0 0 56 144 78 649.0 0 78 145 57 649.0 0 57 146 65 649.0 0 65 147 43 649.0 0 43 148 32 649.0 0 32 149 49 649.0 0 49 150 60 649.0 0 60 151 41 649.0 0 41 152 52 649.0 0 52 153 60 649.0 0 60 154 46 649.0 0 46 155 47 649.0 0 47 156 45 649.0 0 45 157 53 649.0 0 53 158 62 649.0 0 62 159 67 649.0 0 67 160 51 649.0 0 51 161 54 649.0 0 54 162 51 649.0 0 51 163 33 649.0 0 33 164 38 649.0 0 38 165 51 649.0 0 51 166 40 649.0 0 40 167 53 649.0 0 53 168 49 649.0 0 49 169 49 649.0 0 49 170 63 649.0 0 63 171 52 649.0 0 52 172 49 649.0 0 49 173 55 649.0 0 55 174 38 649.0 0 38 175 63 649.0 0 63 176 75 649.0 0 75 177 60 649.0 0 60 178 81 649.0 0 81 179 121 649.0 0 121 180 194 649.0 0 194 181 333 649.0 0 333 182 5533 649.0 0 5533 183 511 649.0 0 511 184 2588 649.0 0 2588 185 59 649.0 0 59 186 54 649.0 0 54 187 47 649.0 0 47 188 70 649.0 0 70 189 126 649.0 0 126 190 238 649.0 0 238 191 117 649.0 0 117 192 119 649.0 0 119 193 1178 649.0 0 1178 194 1820 649.0 0 1820 195 1971 649.0 0 1971 196 668 649.0 0 668 197 191 649.0 0 191 198 119 649.0 0 119 199 35 649.0 0 35 200 67 649.0 0 67 201 52 649.0 0 52 202 58 649.0 0 58 203 48 649.0 0 48 204 55 649.0 0 55 205 152 649.0 0 152 206 70 649.0 0 70 207 52 649.0 0 52 208 71 649.0 0 71 209 65 649.0 0 65 210 52 649.0 0 52 211 72 649.0 0 72 212 61 649.0 0 61 213 168 649.0 0 168 214 592 649.0 0 592 215 318 649.0 0 318 216 474 649.0 0 474 217 97 649.0 0 97 218 85 649.0 0 85 219 170 649.0 0 170 220 214 649.0 0 214 221 218 649.0 0 218 222 83 649.0 0 83 223 74 649.0 0 74 224 56 649.0 0 56 225 81 649.0 0 81 226 68 649.0 0 68 227 86 649.0 0 86 228 57 649.0 0 57 229 52 649.0 0 52 230 48 649.0 0 48 231 71 649.0 0 71 232 68 649.0 0 68 233 104 649.0 0 104 234 153 649.0 0 153 235 40 649.0 0 40 236 122 649.0 0 122 237 64 649.0 0 64 238 80 649.0 0 80 239 334 649.0 0 334 240 452 649.0 0 452 241 344 649.0 0 344 242 229 649.0 0 229 243 36 649.0 0 36 244 57 649.0 0 57 245 51 649.0 0 51 246 73 649.0 0 73 247 63 649.0 0 63 248 71 649.0 0 71 249 118 649.0 0 118 250 347 649.0 0 347 251 466 649.0 0 466 252 651 649.0 0 651 253 731 649.0 0 731 254 66 649.0 0 66 255 61 649.0 0 61 256 86 649.0 0 86 257 128 649.0 0 128 258 96 649.0 0 96 259 131 649.0 0 131 260 82 649.0 0 82 261 107 649.0 0 107 262 115 649.0 0 115 263 601 649.0 0 601 264 299 649.0 0 299 265 666 649.0 0 666 266 174 649.0 0 174 267 106 649.0 0 106 268 110 649.0 0 110 269 88 649.0 0 88 270 105 649.0 0 105 271 79 649.0 0 79 272 116 649.0 0 116 273 50 649.0 0 50 274 71 649.0 0 71 275 95 649.0 0 95 276 63 649.0 0 63 277 73 649.0 0 73 278 46 649.0 0 46 279 50 649.0 0 50 280 57 649.0 0 57 281 70 649.0 0 70 282 88 649.0 0 88 283 169 649.0 0 169 284 98 649.0 0 98 285 160 649.0 0 160 286 113 649.0 0 113 287 166 649.0 0 166 288 1740 649.0 0 1740 289 1278 649.0 0 1278 290 1326 649.0 0 1326 291 579 649.0 0 579 292 65 649.0 0 65 293 89 649.0 0 89 294 101 649.0 0 101 295 75 649.0 0 75 296 64 649.0 0 64 297 115 649.0 0 115 298 85 649.0 0 85 299 97 649.0 0 97 300 171 649.0 0 171 301 142 649.0 0 142 Finished in 17.66 s (49 us/read; 1.24 M reads/minute). === Summary === Total reads processed: 363,636 Reads with adapters: 51,281 (14.1%) Reads that were too short: 131 (0.0%) Reads written (passing filters): 51,150 (14.1%) Total basepairs processed: 94,219,856 bp Total written (filtered): 12,837,270 bp (13.6%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 51281 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 16 1 0.0 3 0 0 0 0 1 18 16 0.0 3 0 0 16 19 484 0.0 3 0 477 7 20 39915 0.0 4 39201 698 16 21 61 0.0 4 12 46 3 22 6 0.0 4 2 0 3 0 1 23 24 0.0 4 1 0 0 23 24 2 0.0 4 0 0 0 0 2 27 1 0.0 4 0 0 0 0 1 34 1 0.0 4 0 0 0 0 1 62 1 0.0 4 0 0 0 0 1 74 1 0.0 4 0 0 0 0 1 82 2 0.0 4 0 0 0 0 2 83 13 0.0 4 0 0 0 0 13 84 10 0.0 4 0 0 0 0 10 85 8378 0.0 4 0 0 0 0 8378 88 9 0.0 4 0 0 0 1 8 98 1 0.0 4 0 0 0 0 1 111 3 0.0 4 1 0 0 0 2 112 2 0.0 4 0 0 0 0 2 113 6 0.0 4 0 0 0 0 6 114 1230 0.0 4 0 0 0 0 1230 117 3 0.0 4 0 0 0 0 3 122 4 0.0 4 0 0 0 0 4 125 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 957 0.0 4 0 0 0 0 957 128 1 0.0 4 0 0 0 0 1 130 2 0.0 4 0 0 0 0 2 131 1 0.0 4 0 0 0 0 1 135 1 0.0 4 1 140 2 0.0 4 0 0 0 0 2 150 1 0.0 4 1 152 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 159 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 173 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 178 2 0.0 4 0 1 0 0 1 186 36 0.0 4 0 0 0 1 35 187 10 0.0 4 0 0 0 1 9 188 1 0.0 4 0 0 0 0 1 189 1 0.0 4 0 0 0 0 1 190 3 0.0 4 0 0 0 0 3 191 1 0.0 4 0 0 0 0 1 192 2 0.0 4 0 0 0 0 2 193 1 0.0 4 0 0 0 0 1 195 1 0.0 4 0 0 0 0 1 196 1 0.0 4 0 0 0 0 1 203 1 0.0 4 0 0 0 0 1 206 1 0.0 4 1 207 1 0.0 4 0 0 0 0 1 208 2 0.0 4 0 0 0 0 2 210 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 215 8 0.0 4 0 0 0 0 8 216 3 0.0 4 0 0 0 0 3 217 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 219 2 0.0 4 0 0 0 0 2 221 1 0.0 4 0 0 0 0 1 222 2 0.0 4 0 0 0 0 2 223 5 0.0 4 0 0 0 0 5 227 2 0.0 4 0 0 0 0 2 228 8 0.0 4 0 0 0 0 8 229 6 0.0 4 0 0 0 0 6 230 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 237 1 0.0 4 0 0 0 0 1 238 2 0.0 4 0 0 0 0 2 240 3 0.0 4 0 0 0 0 3 243 3 0.0 4 0 0 0 1 2 246 4 0.0 4 0 0 0 0 4 249 1 0.0 4 0 0 0 0 1 250 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 269 2 0.0 4 0 0 0 0 2 285 2 0.0 4 0 0 0 0 2 294 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 1.73 s (34 us/read; 1.77 M reads/minute). === Summary === Total reads processed: 51,150 Reads with adapters: 4,173 (8.2%) Reads written (passing filters): 51,150 (100.0%) Total basepairs processed: 12,837,270 bp Total written (filtered): 12,768,644 bp (99.5%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 4173 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 19.8% C: 4.1% G: 73.4% T: 2.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 47 799.2 0 47 4 67 199.8 0 67 5 14 50.0 0 14 9 6 0.2 0 0 6 10 415 0.0 1 20 395 11 2823 0.0 1 15 2808 12 7 0.0 1 0 7 14 2 0.0 1 1 1 18 1 0.0 1 1 19 476 0.0 1 359 117 20 114 0.0 1 94 20 21 12 0.0 1 9 3 22 15 0.0 1 11 4 23 73 0.0 1 56 17 24 2 0.0 1 2 43 1 0.0 1 1 77 1 0.0 1 1 81 1 0.0 1 1 101 1 0.0 1 1 106 2 0.0 1 2 115 1 0.0 1 1 121 4 0.0 1 4 122 1 0.0 1 1 149 1 0.0 1 1 151 1 0.0 1 0 1 167 1 0.0 1 1 170 1 0.0 1 1 175 24 0.0 1 21 3 176 1 0.0 1 1 193 3 0.0 1 2 1 204 1 0.0 1 1 223 2 0.0 1 2 224 51 0.0 1 43 8 226 1 0.0 1 1