This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CCGGAA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 92.80 s (29 us/read; 2.06 M reads/minute). === Summary === Total reads processed: 3,193,041 Reads with adapters: 941,860 (29.5%) Reads that were too short: 859,813 (26.9%) Reads written (passing filters): 82,047 (2.6%) Total basepairs processed: 961,105,341 bp Total written (filtered): 12,393,646 bp (1.3%) === Adapter 1 === Sequence: CCGGAA; Type: regular 5'; Length: 6; Trimmed: 941860 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 62 779.6 0 62 7 194 779.6 0 194 8 383 779.6 0 383 9 3598 779.6 0 3598 10 17 779.6 0 17 11 23 779.6 0 23 12 19 779.6 0 19 13 39 779.6 0 39 14 17 779.6 0 17 15 14 779.6 0 14 16 24 779.6 0 24 17 15 779.6 0 15 18 24 779.6 0 24 19 22 779.6 0 22 20 21 779.6 0 21 21 27 779.6 0 27 22 15 779.6 0 15 23 23 779.6 0 23 24 29 779.6 0 29 25 22 779.6 0 22 26 16 779.6 0 16 27 21 779.6 0 21 28 20 779.6 0 20 29 19 779.6 0 19 30 11 779.6 0 11 31 15 779.6 0 15 32 11 779.6 0 11 33 35 779.6 0 35 34 40 779.6 0 40 35 22 779.6 0 22 36 35 779.6 0 35 37 40 779.6 0 40 38 44 779.6 0 44 39 30 779.6 0 30 40 17 779.6 0 17 41 22 779.6 0 22 42 14 779.6 0 14 43 32 779.6 0 32 44 28 779.6 0 28 45 34 779.6 0 34 46 65 779.6 0 65 47 104 779.6 0 104 48 40 779.6 0 40 49 50 779.6 0 50 50 56 779.6 0 56 51 18 779.6 0 18 52 56 779.6 0 56 53 19 779.6 0 19 54 30 779.6 0 30 55 28 779.6 0 28 56 22 779.6 0 22 57 21 779.6 0 21 58 31 779.6 0 31 59 49 779.6 0 49 60 41 779.6 0 41 61 49 779.6 0 49 62 28 779.6 0 28 63 18 779.6 0 18 64 24 779.6 0 24 65 26 779.6 0 26 66 8 779.6 0 8 67 24 779.6 0 24 68 14 779.6 0 14 69 17 779.6 0 17 70 9 779.6 0 9 71 22 779.6 0 22 72 30 779.6 0 30 73 25 779.6 0 25 74 39 779.6 0 39 75 44 779.6 0 44 76 35 779.6 0 35 77 125 779.6 0 125 78 309 779.6 0 309 79 270 779.6 0 270 80 33 779.6 0 33 81 35 779.6 0 35 82 13 779.6 0 13 83 24 779.6 0 24 84 26 779.6 0 26 85 25 779.6 0 25 86 30 779.6 0 30 87 19 779.6 0 19 88 18 779.6 0 18 89 38 779.6 0 38 90 72 779.6 0 72 91 187 779.6 0 187 92 48 779.6 0 48 93 28 779.6 0 28 94 135 779.6 0 135 95 606 779.6 0 606 96 208 779.6 0 208 97 594 779.6 0 594 98 40 779.6 0 40 99 32 779.6 0 32 100 34 779.6 0 34 101 36 779.6 0 36 102 72 779.6 0 72 103 24 779.6 0 24 104 41 779.6 0 41 105 43 779.6 0 43 106 32 779.6 0 32 107 29 779.6 0 29 108 39 779.6 0 39 109 73 779.6 0 73 110 36 779.6 0 36 111 26 779.6 0 26 112 44 779.6 0 44 113 60 779.6 0 60 114 149 779.6 0 149 115 489 779.6 0 489 116 743 779.6 0 743 117 562 779.6 0 562 118 75 779.6 0 75 119 181 779.6 0 181 120 33 779.6 0 33 121 44 779.6 0 44 122 34 779.6 0 34 123 51 779.6 0 51 124 95 779.6 0 95 125 84 779.6 0 84 126 83 779.6 0 83 127 40 779.6 0 40 128 64 779.6 0 64 129 58 779.6 0 58 130 60 779.6 0 60 131 107 779.6 0 107 132 152 779.6 0 152 133 186 779.6 0 186 134 372 779.6 0 372 135 777 779.6 0 777 136 5242 779.6 0 5242 137 5852 779.6 0 5852 138 16880 779.6 0 16880 139 446 779.6 0 446 140 50 779.6 0 50 141 54 779.6 0 54 142 52 779.6 0 52 143 42 779.6 0 42 144 56 779.6 0 56 145 38 779.6 0 38 146 38 779.6 0 38 147 40 779.6 0 40 148 79 779.6 0 79 149 44 779.6 0 44 150 46 779.6 0 46 151 52 779.6 0 52 152 44 779.6 0 44 153 35 779.6 0 35 154 39 779.6 0 39 155 49 779.6 0 49 156 90 779.6 0 90 157 115 779.6 0 115 158 106 779.6 0 106 159 172 779.6 0 172 160 445 779.6 0 445 161 1949 779.6 0 1949 162 1415 779.6 0 1415 163 4502 779.6 0 4502 164 45 779.6 0 45 165 36 779.6 0 36 166 72 779.6 0 72 167 52 779.6 0 52 168 48 779.6 0 48 169 32 779.6 0 32 170 51 779.6 0 51 171 27 779.6 0 27 172 62 779.6 0 62 173 63 779.6 0 63 174 83 779.6 0 83 175 161 779.6 0 161 176 164 779.6 0 164 177 115 779.6 0 115 178 254 779.6 0 254 179 52 779.6 0 52 180 79 779.6 0 79 181 122 779.6 0 122 182 121 779.6 0 121 183 200 779.6 0 200 184 220 779.6 0 220 185 215 779.6 0 215 186 251 779.6 0 251 187 412 779.6 0 412 188 826 779.6 0 826 189 676 779.6 0 676 190 532 779.6 0 532 191 838 779.6 0 838 192 1097 779.6 0 1097 193 2356 779.6 0 2356 194 2224 779.6 0 2224 195 1359 779.6 0 1359 196 878 779.6 0 878 197 1268 779.6 0 1268 198 1398 779.6 0 1398 199 1475 779.6 0 1475 200 2006 779.6 0 2006 201 10126 779.6 0 10126 202 16013 779.6 0 16013 203 28033 779.6 0 28033 204 32810 779.6 0 32810 205 28215 779.6 0 28215 206 35422 779.6 0 35422 207 91559 779.6 0 91559 208 56283 779.6 0 56283 209 68185 779.6 0 68185 210 33397 779.6 0 33397 211 3103 779.6 0 3103 212 1673 779.6 0 1673 213 1749 779.6 0 1749 214 2688 779.6 0 2688 215 774 779.6 0 774 216 1179 779.6 0 1179 217 1816 779.6 0 1816 218 1259 779.6 0 1259 219 1414 779.6 0 1414 220 3090 779.6 0 3090 221 3417 779.6 0 3417 222 8413 779.6 0 8413 223 9446 779.6 0 9446 224 10932 779.6 0 10932 225 5544 779.6 0 5544 226 9313 779.6 0 9313 227 49358 779.6 0 49358 228 206059 779.6 0 206059 229 125573 779.6 0 125573 230 4996 779.6 0 4996 231 58 779.6 0 58 232 19 779.6 0 19 233 19 779.6 0 19 234 44 779.6 0 44 235 18 779.6 0 18 236 18 779.6 0 18 237 202 779.6 0 202 238 33 779.6 0 33 239 309 779.6 0 309 240 11 779.6 0 11 241 2 779.6 0 2 242 4 779.6 0 4 243 5 779.6 0 5 244 12 779.6 0 12 245 11 779.6 0 11 246 96 779.6 0 96 247 138 779.6 0 138 248 118 779.6 0 118 249 12 779.6 0 12 250 7 779.6 0 7 251 6 779.6 0 6 252 4 779.6 0 4 253 14 779.6 0 14 254 31 779.6 0 31 255 33 779.6 0 33 256 231 779.6 0 231 257 356 779.6 0 356 258 592 779.6 0 592 259 833 779.6 0 833 260 455 779.6 0 455 261 1050 779.6 0 1050 262 1471 779.6 0 1471 263 804 779.6 0 804 264 150 779.6 0 150 265 27 779.6 0 27 266 61 779.6 0 61 267 97 779.6 0 97 268 52 779.6 0 52 269 31 779.6 0 31 270 45 779.6 0 45 271 98 779.6 0 98 272 1004 779.6 0 1004 273 1655 779.6 0 1655 274 4473 779.6 0 4473 275 89 779.6 0 89 276 19 779.6 0 19 277 66 779.6 0 66 278 155 779.6 0 155 279 197 779.6 0 197 280 53 779.6 0 53 281 18 779.6 0 18 282 18 779.6 0 18 283 12 779.6 0 12 284 39 779.6 0 39 285 35 779.6 0 35 286 288 779.6 0 288 287 353 779.6 0 353 288 217 779.6 0 217 289 57 779.6 0 57 290 29 779.6 0 29 291 113 779.6 0 113 292 60 779.6 0 60 293 73 779.6 0 73 294 67 779.6 0 67 295 627 779.6 0 627 296 373 779.6 0 373 297 141 779.6 0 141 298 143 779.6 0 143 299 81 779.6 0 81 300 18 779.6 0 18 301 50 779.6 0 50 Finished in 2.85 s (35 us/read; 1.73 M reads/minute). === Summary === Total reads processed: 82,047 Reads with adapters: 3,984 (4.9%) Reads that were too short: 21 (0.0%) Reads written (passing filters): 3,963 (4.8%) Total basepairs processed: 12,393,646 bp Total written (filtered): 1,084,693 bp (8.8%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 3984 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-17 bp: 3 Overview of removed sequences length count expect max.err error counts 14 1 0.0 2 0 0 0 1 15 2 0.0 3 0 0 1 1 16 34 0.0 3 0 33 0 1 17 3851 0.0 3 3783 65 3 18 26 0.0 3 5 13 8 19 13 0.0 3 0 0 4 9 20 3 0.0 3 0 0 0 3 24 1 0.0 3 0 0 0 1 30 1 0.0 3 0 0 0 1 31 11 0.0 3 0 0 0 11 34 7 0.0 3 0 0 0 7 76 7 0.0 3 0 0 0 7 79 11 0.0 3 0 0 0 11 94 1 0.0 3 0 0 0 1 104 2 0.0 3 0 0 1 1 109 1 0.0 3 0 0 0 1 110 2 0.0 3 0 0 1 1 117 1 0.0 3 0 0 0 1 122 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 142 1 0.0 3 0 0 0 1 151 1 0.0 3 0 0 1 159 2 0.0 3 0 0 0 2 178 1 0.0 3 0 0 0 1 225 1 0.0 3 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a taatctatgggnncatcagg - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.18 s (45 us/read; 1.32 M reads/minute). === Summary === Total reads processed: 3,963 Reads with adapters: 7 (0.2%) Reads written (passing filters): 3,963 (100.0%) Total basepairs processed: 1,084,693 bp Total written (filtered): 1,084,672 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 7 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 28.6% C: 42.9% G: 14.3% T: 14.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 7 61.9 0 7