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 58.64 s (26 us/read; 2.29 M reads/minute). === Summary === Total reads processed: 2,238,925 Reads with adapters: 269,980 (12.1%) Reads that were too short: 19,287 (0.9%) Reads written (passing filters): 250,693 (11.2%) Total basepairs processed: 673,916,425 bp Total written (filtered): 38,714,228 bp (5.7%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 269980 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 299 546.6 0 299 7 4128 546.6 0 4128 8 66 546.6 0 66 9 4015 546.6 0 4015 10 34 546.6 0 34 11 28 546.6 0 28 12 25 546.6 0 25 13 28 546.6 0 28 14 57 546.6 0 57 15 24 546.6 0 24 16 27 546.6 0 27 17 22 546.6 0 22 18 29 546.6 0 29 19 26 546.6 0 26 20 38 546.6 0 38 21 42 546.6 0 42 22 79 546.6 0 79 23 31 546.6 0 31 24 53 546.6 0 53 25 42 546.6 0 42 26 15 546.6 0 15 27 22 546.6 0 22 28 25 546.6 0 25 29 32 546.6 0 32 30 31 546.6 0 31 31 47 546.6 0 47 32 30 546.6 0 30 33 31 546.6 0 31 34 61 546.6 0 61 35 45 546.6 0 45 36 61 546.6 0 61 37 28 546.6 0 28 38 40 546.6 0 40 39 34 546.6 0 34 40 24 546.6 0 24 41 33 546.6 0 33 42 22 546.6 0 22 43 42 546.6 0 42 44 70 546.6 0 70 45 59 546.6 0 59 46 692 546.6 0 692 47 93 546.6 0 93 48 324 546.6 0 324 49 33 546.6 0 33 50 56 546.6 0 56 51 36 546.6 0 36 52 31 546.6 0 31 53 33 546.6 0 33 54 57 546.6 0 57 55 121 546.6 0 121 56 167 546.6 0 167 57 37 546.6 0 37 58 36 546.6 0 36 59 31 546.6 0 31 60 42 546.6 0 42 61 38 546.6 0 38 62 45 546.6 0 45 63 23 546.6 0 23 64 28 546.6 0 28 65 50 546.6 0 50 66 39 546.6 0 39 67 95 546.6 0 95 68 50 546.6 0 50 69 76 546.6 0 76 70 95 546.6 0 95 71 21 546.6 0 21 72 48 546.6 0 48 73 32 546.6 0 32 74 50 546.6 0 50 75 25 546.6 0 25 76 23 546.6 0 23 77 28 546.6 0 28 78 34 546.6 0 34 79 27 546.6 0 27 80 41 546.6 0 41 81 40 546.6 0 40 82 73 546.6 0 73 83 39 546.6 0 39 84 35 546.6 0 35 85 36 546.6 0 36 86 41 546.6 0 41 87 49 546.6 0 49 88 70 546.6 0 70 89 50 546.6 0 50 90 85 546.6 0 85 91 123 546.6 0 123 92 83 546.6 0 83 93 68 546.6 0 68 94 94 546.6 0 94 95 105 546.6 0 105 96 77 546.6 0 77 97 68 546.6 0 68 98 59 546.6 0 59 99 51 546.6 0 51 100 56 546.6 0 56 101 66 546.6 0 66 102 61 546.6 0 61 103 75 546.6 0 75 104 872 546.6 0 872 105 617 546.6 0 617 106 3431 546.6 0 3431 107 328 546.6 0 328 108 246 546.6 0 246 109 109 546.6 0 109 110 100 546.6 0 100 111 69 546.6 0 69 112 215 546.6 0 215 113 88 546.6 0 88 114 140 546.6 0 140 115 49 546.6 0 49 116 51 546.6 0 51 117 77 546.6 0 77 118 50 546.6 0 50 119 142 546.6 0 142 120 50 546.6 0 50 121 69 546.6 0 69 122 54 546.6 0 54 123 55 546.6 0 55 124 86 546.6 0 86 125 77 546.6 0 77 126 128 546.6 0 128 127 230 546.6 0 230 128 273 546.6 0 273 129 435 546.6 0 435 130 117 546.6 0 117 131 155 546.6 0 155 132 104 546.6 0 104 133 126 546.6 0 126 134 337 546.6 0 337 135 102 546.6 0 102 136 149 546.6 0 149 137 71 546.6 0 71 138 135 546.6 0 135 139 198 546.6 0 198 140 207 546.6 0 207 141 335 546.6 0 335 142 550 546.6 0 550 143 763 546.6 0 763 144 1421 546.6 0 1421 145 3719 546.6 0 3719 146 48420 546.6 0 48420 147 11012 546.6 0 11012 148 38554 546.6 0 38554 149 495 546.6 0 495 150 303 546.6 0 303 151 749 546.6 0 749 152 231 546.6 0 231 153 739 546.6 0 739 154 225 546.6 0 225 155 606 546.6 0 606 156 370 546.6 0 370 157 578 546.6 0 578 158 865 546.6 0 865 159 1967 546.6 0 1967 160 5068 546.6 0 5068 161 49726 546.6 0 49726 162 13832 546.6 0 13832 163 39564 546.6 0 39564 164 191 546.6 0 191 165 126 546.6 0 126 166 100 546.6 0 100 167 98 546.6 0 98 168 100 546.6 0 100 169 75 546.6 0 75 170 27 546.6 0 27 171 49 546.6 0 49 172 46 546.6 0 46 173 77 546.6 0 77 174 241 546.6 0 241 175 133 546.6 0 133 176 237 546.6 0 237 177 80 546.6 0 80 178 69 546.6 0 69 179 78 546.6 0 78 180 96 546.6 0 96 181 352 546.6 0 352 182 730 546.6 0 730 183 1909 546.6 0 1909 184 742 546.6 0 742 185 110 546.6 0 110 186 185 546.6 0 185 187 88 546.6 0 88 188 123 546.6 0 123 189 37 546.6 0 37 190 51 546.6 0 51 191 36 546.6 0 36 192 80 546.6 0 80 193 66 546.6 0 66 194 67 546.6 0 67 195 92 546.6 0 92 196 51 546.6 0 51 197 61 546.6 0 61 198 41 546.6 0 41 199 69 546.6 0 69 200 73 546.6 0 73 201 67 546.6 0 67 202 68 546.6 0 68 203 45 546.6 0 45 204 58 546.6 0 58 205 65 546.6 0 65 206 85 546.6 0 85 207 101 546.6 0 101 208 47 546.6 0 47 209 80 546.6 0 80 210 41 546.6 0 41 211 74 546.6 0 74 212 62 546.6 0 62 213 221 546.6 0 221 214 139 546.6 0 139 215 160 546.6 0 160 216 127 546.6 0 127 217 65 546.6 0 65 218 89 546.6 0 89 219 104 546.6 0 104 220 148 546.6 0 148 221 115 546.6 0 115 222 70 546.6 0 70 223 73 546.6 0 73 224 54 546.6 0 54 225 54 546.6 0 54 226 53 546.6 0 53 227 67 546.6 0 67 228 67 546.6 0 67 229 84 546.6 0 84 230 82 546.6 0 82 231 200 546.6 0 200 232 99 546.6 0 99 233 182 546.6 0 182 234 77 546.6 0 77 235 69 546.6 0 69 236 91 546.6 0 91 237 82 546.6 0 82 238 162 546.6 0 162 239 283 546.6 0 283 240 1605 546.6 0 1605 241 652 546.6 0 652 242 937 546.6 0 937 243 244 546.6 0 244 244 212 546.6 0 212 245 77 546.6 0 77 246 64 546.6 0 64 247 107 546.6 0 107 248 82 546.6 0 82 249 100 546.6 0 100 250 77 546.6 0 77 251 85 546.6 0 85 252 87 546.6 0 87 253 192 546.6 0 192 254 132 546.6 0 132 255 125 546.6 0 125 256 106 546.6 0 106 257 125 546.6 0 125 258 117 546.6 0 117 259 91 546.6 0 91 260 85 546.6 0 85 261 98 546.6 0 98 262 79 546.6 0 79 263 91 546.6 0 91 264 43 546.6 0 43 265 82 546.6 0 82 266 97 546.6 0 97 267 519 546.6 0 519 268 529 546.6 0 529 269 1145 546.6 0 1145 270 396 546.6 0 396 271 180 546.6 0 180 272 142 546.6 0 142 273 146 546.6 0 146 274 255 546.6 0 255 275 335 546.6 0 335 276 275 546.6 0 275 277 748 546.6 0 748 278 385 546.6 0 385 279 885 546.6 0 885 280 293 546.6 0 293 281 495 546.6 0 495 282 320 546.6 0 320 283 236 546.6 0 236 284 124 546.6 0 124 285 71 546.6 0 71 286 88 546.6 0 88 287 93 546.6 0 93 288 157 546.6 0 157 289 131 546.6 0 131 290 165 546.6 0 165 291 109 546.6 0 109 292 143 546.6 0 143 293 164 546.6 0 164 294 278 546.6 0 278 295 286 546.6 0 286 296 210 546.6 0 210 297 114 546.6 0 114 298 133 546.6 0 133 299 59 546.6 0 59 300 72 546.6 0 72 301 71 546.6 0 71 Finished in 7.79 s (31 us/read; 1.93 M reads/minute). === Summary === Total reads processed: 250,693 Reads with adapters: 4,639 (1.9%) Reads that were too short: 271 (0.1%) Reads written (passing filters): 4,368 (1.7%) Total basepairs processed: 38,714,228 bp Total written (filtered): 1,158,135 bp (3.0%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 4639 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 3 0.0 3 0 0 3 16 77 0.0 3 0 67 7 3 17 3977 0.0 3 3705 214 50 8 18 15 0.0 3 2 7 3 3 19 8 0.0 3 2 0 2 4 20 28 0.0 3 0 0 0 28 26 1 0.0 3 0 0 0 1 28 1 0.0 3 0 0 0 1 29 2 0.0 3 0 0 0 2 32 1 0.0 3 0 0 0 1 34 1 0.0 3 0 0 0 1 36 2 0.0 3 0 0 0 2 37 2 0.0 3 0 0 0 2 38 4 0.0 3 0 0 0 4 40 3 0.0 3 0 0 0 3 42 1 0.0 3 0 0 0 1 44 6 0.0 3 0 0 0 6 45 2 0.0 3 0 0 0 2 46 6 0.0 3 0 0 0 6 48 4 0.0 3 0 0 0 4 50 1 0.0 3 0 0 0 1 51 9 0.0 3 0 0 1 8 52 3 0.0 3 0 0 0 3 53 3 0.0 3 0 0 0 3 54 1 0.0 3 0 0 0 1 55 58 0.0 3 0 0 4 54 56 1 0.0 3 0 0 0 1 57 1 0.0 3 0 0 0 1 61 5 0.0 3 0 0 0 5 62 2 0.0 3 0 0 0 2 63 1 0.0 3 0 0 0 1 65 2 0.0 3 0 0 0 2 66 2 0.0 3 0 0 0 2 67 17 0.0 3 0 0 0 17 69 1 0.0 3 0 0 0 1 70 1 0.0 3 0 0 0 1 72 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 87 156 0.0 3 0 0 1 155 88 4 0.0 3 0 0 1 3 90 19 0.0 3 0 0 0 19 93 2 0.0 3 0 0 0 2 95 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 98 2 0.0 3 0 0 0 2 99 1 0.0 3 0 0 0 1 103 1 0.0 3 0 0 0 1 104 2 0.0 3 0 0 0 2 106 1 0.0 3 0 0 0 1 107 1 0.0 3 0 0 0 1 109 1 0.0 3 0 0 0 1 111 2 0.0 3 0 0 0 2 112 6 0.0 3 0 0 0 6 113 4 0.0 3 0 0 0 4 116 3 0.0 3 0 0 0 3 118 1 0.0 3 0 0 0 1 122 3 0.0 3 0 0 1 2 123 1 0.0 3 0 0 1 124 1 0.0 3 0 0 0 1 125 15 0.0 3 0 0 0 15 126 9 0.0 3 0 0 0 9 127 24 0.0 3 0 0 2 22 128 9 0.0 3 0 0 0 9 129 1 0.0 3 0 0 0 1 130 1 0.0 3 0 0 0 1 131 18 0.0 3 0 0 0 18 132 6 0.0 3 0 0 0 6 133 3 0.0 3 0 0 0 3 134 1 0.0 3 0 0 0 1 136 3 0.0 3 0 0 0 3 137 1 0.0 3 0 0 0 1 138 7 0.0 3 0 0 0 7 139 5 0.0 3 0 0 0 5 140 5 0.0 3 0 0 0 5 141 12 0.0 3 0 0 0 12 142 8 0.0 3 0 0 0 8 143 3 0.0 3 0 0 0 3 145 1 0.0 3 0 0 0 1 147 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 151 1 0.0 3 0 0 1 152 1 0.0 3 0 0 0 1 158 1 0.0 3 0 0 0 1 163 1 0.0 3 0 0 0 1 164 1 0.0 3 0 0 0 1 166 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 169 1 0.0 3 0 0 0 1 173 1 0.0 3 0 0 0 1 176 1 0.0 3 0 0 0 1 177 1 0.0 3 0 0 0 1 179 2 0.0 3 0 0 0 2 182 1 0.0 3 0 0 0 1 184 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 187 1 0.0 3 0 0 0 1 188 3 0.0 3 0 0 0 3 189 2 0.0 3 0 0 0 2 190 1 0.0 3 0 0 0 1 198 1 0.0 3 0 0 0 1 200 1 0.0 3 0 0 0 1 216 1 0.0 3 0 0 0 1 225 1 0.0 3 0 0 0 1 230 1 0.0 3 0 0 0 1 240 1 0.0 3 0 0 0 1 258 1 0.0 3 0 0 0 1 270 1 0.0 3 0 0 0 1 279 1 0.0 3 0 0 0 1 281 1 0.0 3 0 0 0 1 282 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 0.15 s (34 us/read; 1.75 M reads/minute). === Summary === Total reads processed: 4,368 Reads with adapters: 10 (0.2%) Reads written (passing filters): 4,368 (100.0%) Total basepairs processed: 1,158,135 bp Total written (filtered): 1,158,102 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 10 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 10.0% C: 20.0% G: 70.0% T: 0.0% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 7 68.2 0 7 4 3 17.1 0 3