This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g CACTCT -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 183.31 s (50 us/read; 1.19 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 709,399 (19.5%) Reads that were too short: 20,314 (0.6%) Reads written (passing filters): 689,085 (19.0%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 100,181,598 bp (9.2%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 709399 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 379 887.3 0 379 7 2419 887.3 0 2419 8 56 887.3 0 56 9 1881 887.3 0 1881 10 85 887.3 0 85 11 24 887.3 0 24 12 60 887.3 0 60 13 30 887.3 0 30 14 56 887.3 0 56 15 35 887.3 0 35 16 40 887.3 0 40 17 57 887.3 0 57 18 40 887.3 0 40 19 39 887.3 0 39 20 22 887.3 0 22 21 33 887.3 0 33 22 40 887.3 0 40 23 36 887.3 0 36 24 33 887.3 0 33 25 45 887.3 0 45 26 35 887.3 0 35 27 25 887.3 0 25 28 22 887.3 0 22 29 32 887.3 0 32 30 50 887.3 0 50 31 56 887.3 0 56 32 42 887.3 0 42 33 36 887.3 0 36 34 45 887.3 0 45 35 103 887.3 0 103 36 74 887.3 0 74 37 58 887.3 0 58 38 47 887.3 0 47 39 85 887.3 0 85 40 44 887.3 0 44 41 38 887.3 0 38 42 45 887.3 0 45 43 48 887.3 0 48 44 42 887.3 0 42 45 23 887.3 0 23 46 193 887.3 0 193 47 163 887.3 0 163 48 210 887.3 0 210 49 92 887.3 0 92 50 55 887.3 0 55 51 33 887.3 0 33 52 47 887.3 0 47 53 51 887.3 0 51 54 73 887.3 0 73 55 51 887.3 0 51 56 99 887.3 0 99 57 126 887.3 0 126 58 60 887.3 0 60 59 70 887.3 0 70 60 63 887.3 0 63 61 58 887.3 0 58 62 72 887.3 0 72 63 38 887.3 0 38 64 44 887.3 0 44 65 54 887.3 0 54 66 40 887.3 0 40 67 62 887.3 0 62 68 92 887.3 0 92 69 41 887.3 0 41 70 108 887.3 0 108 71 116 887.3 0 116 72 51 887.3 0 51 73 73 887.3 0 73 74 70 887.3 0 70 75 33 887.3 0 33 76 35 887.3 0 35 77 36 887.3 0 36 78 49 887.3 0 49 79 65 887.3 0 65 80 64 887.3 0 64 81 45 887.3 0 45 82 53 887.3 0 53 83 65 887.3 0 65 84 72 887.3 0 72 85 53 887.3 0 53 86 48 887.3 0 48 87 74 887.3 0 74 88 94 887.3 0 94 89 66 887.3 0 66 90 114 887.3 0 114 91 64 887.3 0 64 92 108 887.3 0 108 93 61 887.3 0 61 94 92 887.3 0 92 95 87 887.3 0 87 96 109 887.3 0 109 97 60 887.3 0 60 98 66 887.3 0 66 99 75 887.3 0 75 100 51 887.3 0 51 101 55 887.3 0 55 102 74 887.3 0 74 103 103 887.3 0 103 104 195 887.3 0 195 105 353 887.3 0 353 106 729 887.3 0 729 107 233 887.3 0 233 108 151 887.3 0 151 109 156 887.3 0 156 110 99 887.3 0 99 111 93 887.3 0 93 112 135 887.3 0 135 113 90 887.3 0 90 114 141 887.3 0 141 115 54 887.3 0 54 116 153 887.3 0 153 117 113 887.3 0 113 118 103 887.3 0 103 119 298 887.3 0 298 120 62 887.3 0 62 121 89 887.3 0 89 122 79 887.3 0 79 123 72 887.3 0 72 124 200 887.3 0 200 125 151 887.3 0 151 126 195 887.3 0 195 127 246 887.3 0 246 128 286 887.3 0 286 129 546 887.3 0 546 130 118 887.3 0 118 131 255 887.3 0 255 132 123 887.3 0 123 133 196 887.3 0 196 134 1234 887.3 0 1234 135 255 887.3 0 255 136 153 887.3 0 153 137 105 887.3 0 105 138 137 887.3 0 137 139 231 887.3 0 231 140 296 887.3 0 296 141 608 887.3 0 608 142 616 887.3 0 616 143 1349 887.3 0 1349 144 2488 887.3 0 2488 145 2931 887.3 0 2931 146 49612 887.3 0 49612 147 47399 887.3 0 47399 148 79438 887.3 0 79438 149 898 887.3 0 898 150 279 887.3 0 279 151 835 887.3 0 835 152 853 887.3 0 853 153 1030 887.3 0 1030 154 701 887.3 0 701 155 879 887.3 0 879 156 1432 887.3 0 1432 157 1943 887.3 0 1943 158 2925 887.3 0 2925 159 4831 887.3 0 4831 160 8021 887.3 0 8021 161 133771 887.3 0 133771 162 175330 887.3 0 175330 163 146062 887.3 0 146062 164 754 887.3 0 754 165 146 887.3 0 146 166 85 887.3 0 85 167 86 887.3 0 86 168 73 887.3 0 73 169 61 887.3 0 61 170 50 887.3 0 50 171 44 887.3 0 44 172 56 887.3 0 56 173 65 887.3 0 65 174 121 887.3 0 121 175 110 887.3 0 110 176 105 887.3 0 105 177 65 887.3 0 65 178 64 887.3 0 64 179 82 887.3 0 82 180 110 887.3 0 110 181 733 887.3 0 733 182 1143 887.3 0 1143 183 675 887.3 0 675 184 367 887.3 0 367 185 50 887.3 0 50 186 81 887.3 0 81 187 71 887.3 0 71 188 78 887.3 0 78 189 89 887.3 0 89 190 65 887.3 0 65 191 45 887.3 0 45 192 50 887.3 0 50 193 62 887.3 0 62 194 59 887.3 0 59 195 48 887.3 0 48 196 73 887.3 0 73 197 51 887.3 0 51 198 56 887.3 0 56 199 59 887.3 0 59 200 85 887.3 0 85 201 76 887.3 0 76 202 69 887.3 0 69 203 62 887.3 0 62 204 78 887.3 0 78 205 203 887.3 0 203 206 72 887.3 0 72 207 76 887.3 0 76 208 52 887.3 0 52 209 59 887.3 0 59 210 56 887.3 0 56 211 49 887.3 0 49 212 61 887.3 0 61 213 178 887.3 0 178 214 101 887.3 0 101 215 123 887.3 0 123 216 102 887.3 0 102 217 80 887.3 0 80 218 103 887.3 0 103 219 87 887.3 0 87 220 126 887.3 0 126 221 96 887.3 0 96 222 68 887.3 0 68 223 74 887.3 0 74 224 63 887.3 0 63 225 72 887.3 0 72 226 71 887.3 0 71 227 63 887.3 0 63 228 92 887.3 0 92 229 80 887.3 0 80 230 98 887.3 0 98 231 116 887.3 0 116 232 111 887.3 0 111 233 92 887.3 0 92 234 90 887.3 0 90 235 67 887.3 0 67 236 168 887.3 0 168 237 172 887.3 0 172 238 169 887.3 0 169 239 328 887.3 0 328 240 1116 887.3 0 1116 241 1208 887.3 0 1208 242 1118 887.3 0 1118 243 308 887.3 0 308 244 175 887.3 0 175 245 86 887.3 0 86 246 92 887.3 0 92 247 88 887.3 0 88 248 85 887.3 0 85 249 110 887.3 0 110 250 85 887.3 0 85 251 95 887.3 0 95 252 71 887.3 0 71 253 145 887.3 0 145 254 122 887.3 0 122 255 108 887.3 0 108 256 70 887.3 0 70 257 103 887.3 0 103 258 89 887.3 0 89 259 103 887.3 0 103 260 116 887.3 0 116 261 81 887.3 0 81 262 74 887.3 0 74 263 75 887.3 0 75 264 56 887.3 0 56 265 67 887.3 0 67 266 108 887.3 0 108 267 284 887.3 0 284 268 505 887.3 0 505 269 609 887.3 0 609 270 354 887.3 0 354 271 311 887.3 0 311 272 266 887.3 0 266 273 186 887.3 0 186 274 169 887.3 0 169 275 304 887.3 0 304 276 495 887.3 0 495 277 930 887.3 0 930 278 1072 887.3 0 1072 279 1454 887.3 0 1454 280 879 887.3 0 879 281 230 887.3 0 230 282 178 887.3 0 178 283 168 887.3 0 168 284 87 887.3 0 87 285 62 887.3 0 62 286 108 887.3 0 108 287 97 887.3 0 97 288 155 887.3 0 155 289 180 887.3 0 180 290 143 887.3 0 143 291 95 887.3 0 95 292 126 887.3 0 126 293 140 887.3 0 140 294 171 887.3 0 171 295 189 887.3 0 189 296 132 887.3 0 132 297 105 887.3 0 105 298 101 887.3 0 101 299 76 887.3 0 76 300 74 887.3 0 74 301 98 887.3 0 98 Finished in 35.00 s (51 us/read; 1.18 M reads/minute). === Summary === Total reads processed: 689,085 Reads with adapters: 2,087 (0.3%) Reads that were too short: 140 (0.0%) Reads written (passing filters): 1,947 (0.3%) Total basepairs processed: 100,181,598 bp Total written (filtered): 527,285 bp (0.5%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 2087 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 15 1 0.0 3 0 0 1 16 28 0.0 3 0 28 17 1859 0.0 3 1814 44 1 18 5 0.0 3 0 5 19 2 0.0 3 0 0 1 1 20 2 0.0 3 0 0 0 2 25 1 0.0 3 0 0 0 1 28 2 0.0 3 0 0 0 2 29 3 0.0 3 0 0 0 3 37 1 0.0 3 0 0 0 1 38 1 0.0 3 0 0 0 1 40 1 0.0 3 0 0 0 1 42 2 0.0 3 0 0 0 2 44 3 0.0 3 0 0 0 3 45 1 0.0 3 0 0 0 1 46 1 0.0 3 0 0 0 1 52 3 0.0 3 0 0 0 3 53 1 0.0 3 0 0 0 1 55 16 0.0 3 0 0 0 16 57 1 0.0 3 0 0 0 1 62 2 0.0 3 0 0 0 2 63 4 0.0 3 0 0 0 4 65 2 0.0 3 0 0 0 2 67 11 0.0 3 0 0 0 11 68 1 0.0 3 0 0 0 1 69 2 0.0 3 0 0 0 2 71 1 0.0 3 0 0 0 1 73 5 0.0 3 0 0 1 4 76 1 0.0 3 0 0 0 1 79 1 0.0 3 0 0 0 1 82 1 0.0 3 0 0 0 1 84 1 0.0 3 0 0 0 1 85 1 0.0 3 0 0 0 1 86 1 0.0 3 0 0 0 1 87 13 0.0 3 0 0 0 13 88 2 0.0 3 0 0 0 2 90 2 0.0 3 0 0 0 2 91 1 0.0 3 0 0 0 1 95 1 0.0 3 1 96 1 0.0 3 0 0 0 1 113 1 0.0 3 0 0 0 1 114 2 0.0 3 0 0 0 2 125 17 0.0 3 0 0 0 17 126 3 0.0 3 0 0 0 3 127 20 0.0 3 0 0 0 20 128 10 0.0 3 0 0 0 10 129 2 0.0 3 0 0 0 2 130 4 0.0 3 0 0 0 4 131 6 0.0 3 0 0 0 6 132 4 0.0 3 0 0 0 4 136 2 0.0 3 0 0 0 2 139 5 0.0 3 0 0 0 5 140 4 0.0 3 0 0 0 4 141 6 0.0 3 0 0 0 6 142 3 0.0 3 0 0 0 3 143 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 150 1 0.0 3 0 0 0 1 155 2 0.0 3 0 0 0 2 163 1 0.0 3 0 0 0 1 199 1 0.0 3 0 0 0 1 200 1 0.0 3 0 0 0 1 241 1 0.0 3 0 0 0 1 260 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 0.11 s (56 us/read; 1.06 M reads/minute). === Summary === Total reads processed: 1,947 Reads with adapters: 142 (7.3%) Reads written (passing filters): 1,947 (100.0%) Total basepairs processed: 527,285 bp Total written (filtered): 526,858 bp (99.9%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 142 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 91.5% C: 7.0% G: 1.4% T: 0.0% none/other: 0.0% WARNING: The adapter is preceded by "A" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "A" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 141 30.4 0 141 4 1 7.6 0 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.