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 76.31 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 2,852,348 Reads with adapters: 342,016 (12.0%) Reads that were too short: 15,027 (0.5%) Reads written (passing filters): 326,989 (11.5%) Total basepairs processed: 858,556,748 bp Total written (filtered): 50,708,299 bp (5.9%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 342016 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 652 696.4 0 652 7 8240 696.4 0 8240 8 101 696.4 0 101 9 7609 696.4 0 7609 10 36 696.4 0 36 11 22 696.4 0 22 12 43 696.4 0 43 13 16 696.4 0 16 14 28 696.4 0 28 15 15 696.4 0 15 16 22 696.4 0 22 17 25 696.4 0 25 18 26 696.4 0 26 19 12 696.4 0 12 20 14 696.4 0 14 21 25 696.4 0 25 22 21 696.4 0 21 23 24 696.4 0 24 24 34 696.4 0 34 25 25 696.4 0 25 26 21 696.4 0 21 27 16 696.4 0 16 28 14 696.4 0 14 29 24 696.4 0 24 30 32 696.4 0 32 31 65 696.4 0 65 32 43 696.4 0 43 33 35 696.4 0 35 34 33 696.4 0 33 35 40 696.4 0 40 36 33 696.4 0 33 37 36 696.4 0 36 38 40 696.4 0 40 39 20 696.4 0 20 40 31 696.4 0 31 41 25 696.4 0 25 42 17 696.4 0 17 43 26 696.4 0 26 44 36 696.4 0 36 45 19 696.4 0 19 46 285 696.4 0 285 47 120 696.4 0 120 48 111 696.4 0 111 49 20 696.4 0 20 50 28 696.4 0 28 51 25 696.4 0 25 52 31 696.4 0 31 53 22 696.4 0 22 54 54 696.4 0 54 55 33 696.4 0 33 56 48 696.4 0 48 57 36 696.4 0 36 58 33 696.4 0 33 59 30 696.4 0 30 60 25 696.4 0 25 61 24 696.4 0 24 62 31 696.4 0 31 63 30 696.4 0 30 64 20 696.4 0 20 65 23 696.4 0 23 66 21 696.4 0 21 67 29 696.4 0 29 68 43 696.4 0 43 69 53 696.4 0 53 70 129 696.4 0 129 71 60 696.4 0 60 72 141 696.4 0 141 73 32 696.4 0 32 74 27 696.4 0 27 75 23 696.4 0 23 76 25 696.4 0 25 77 18 696.4 0 18 78 33 696.4 0 33 79 24 696.4 0 24 80 22 696.4 0 22 81 23 696.4 0 23 82 42 696.4 0 42 83 41 696.4 0 41 84 39 696.4 0 39 85 61 696.4 0 61 86 44 696.4 0 44 87 57 696.4 0 57 88 78 696.4 0 78 89 59 696.4 0 59 90 91 696.4 0 91 91 76 696.4 0 76 92 74 696.4 0 74 93 52 696.4 0 52 94 106 696.4 0 106 95 106 696.4 0 106 96 68 696.4 0 68 97 48 696.4 0 48 98 31 696.4 0 31 99 33 696.4 0 33 100 30 696.4 0 30 101 36 696.4 0 36 102 44 696.4 0 44 103 51 696.4 0 51 104 256 696.4 0 256 105 314 696.4 0 314 106 905 696.4 0 905 107 101 696.4 0 101 108 111 696.4 0 111 109 115 696.4 0 115 110 94 696.4 0 94 111 46 696.4 0 46 112 159 696.4 0 159 113 79 696.4 0 79 114 126 696.4 0 126 115 35 696.4 0 35 116 71 696.4 0 71 117 49 696.4 0 49 118 50 696.4 0 50 119 231 696.4 0 231 120 45 696.4 0 45 121 45 696.4 0 45 122 73 696.4 0 73 123 50 696.4 0 50 124 96 696.4 0 96 125 107 696.4 0 107 126 109 696.4 0 109 127 199 696.4 0 199 128 216 696.4 0 216 129 400 696.4 0 400 130 78 696.4 0 78 131 181 696.4 0 181 132 104 696.4 0 104 133 129 696.4 0 129 134 531 696.4 0 531 135 170 696.4 0 170 136 174 696.4 0 174 137 91 696.4 0 91 138 150 696.4 0 150 139 184 696.4 0 184 140 241 696.4 0 241 141 487 696.4 0 487 142 546 696.4 0 546 143 977 696.4 0 977 144 1820 696.4 0 1820 145 2699 696.4 0 2699 146 45056 696.4 0 45056 147 54457 696.4 0 54457 148 27272 696.4 0 27272 149 403 696.4 0 403 150 240 696.4 0 240 151 516 696.4 0 516 152 374 696.4 0 374 153 486 696.4 0 486 154 323 696.4 0 323 155 413 696.4 0 413 156 566 696.4 0 566 157 802 696.4 0 802 158 1258 696.4 0 1258 159 2427 696.4 0 2427 160 3495 696.4 0 3495 161 69134 696.4 0 69134 162 51105 696.4 0 51105 163 31507 696.4 0 31507 164 250 696.4 0 250 165 95 696.4 0 95 166 69 696.4 0 69 167 81 696.4 0 81 168 59 696.4 0 59 169 46 696.4 0 46 170 28 696.4 0 28 171 50 696.4 0 50 172 52 696.4 0 52 173 65 696.4 0 65 174 149 696.4 0 149 175 122 696.4 0 122 176 90 696.4 0 90 177 63 696.4 0 63 178 46 696.4 0 46 179 79 696.4 0 79 180 126 696.4 0 126 181 230 696.4 0 230 182 365 696.4 0 365 183 397 696.4 0 397 184 254 696.4 0 254 185 46 696.4 0 46 186 92 696.4 0 92 187 117 696.4 0 117 188 85 696.4 0 85 189 58 696.4 0 58 190 39 696.4 0 39 191 43 696.4 0 43 192 86 696.4 0 86 193 61 696.4 0 61 194 75 696.4 0 75 195 55 696.4 0 55 196 60 696.4 0 60 197 82 696.4 0 82 198 66 696.4 0 66 199 67 696.4 0 67 200 91 696.4 0 91 201 77 696.4 0 77 202 70 696.4 0 70 203 65 696.4 0 65 204 57 696.4 0 57 205 72 696.4 0 72 206 106 696.4 0 106 207 58 696.4 0 58 208 46 696.4 0 46 209 58 696.4 0 58 210 37 696.4 0 37 211 45 696.4 0 45 212 57 696.4 0 57 213 152 696.4 0 152 214 114 696.4 0 114 215 119 696.4 0 119 216 101 696.4 0 101 217 81 696.4 0 81 218 75 696.4 0 75 219 95 696.4 0 95 220 110 696.4 0 110 221 95 696.4 0 95 222 65 696.4 0 65 223 68 696.4 0 68 224 64 696.4 0 64 225 65 696.4 0 65 226 72 696.4 0 72 227 74 696.4 0 74 228 78 696.4 0 78 229 70 696.4 0 70 230 98 696.4 0 98 231 116 696.4 0 116 232 115 696.4 0 115 233 78 696.4 0 78 234 85 696.4 0 85 235 58 696.4 0 58 236 92 696.4 0 92 237 68 696.4 0 68 238 143 696.4 0 143 239 235 696.4 0 235 240 507 696.4 0 507 241 657 696.4 0 657 242 540 696.4 0 540 243 185 696.4 0 185 244 139 696.4 0 139 245 86 696.4 0 86 246 83 696.4 0 83 247 75 696.4 0 75 248 104 696.4 0 104 249 104 696.4 0 104 250 89 696.4 0 89 251 88 696.4 0 88 252 87 696.4 0 87 253 119 696.4 0 119 254 93 696.4 0 93 255 104 696.4 0 104 256 86 696.4 0 86 257 82 696.4 0 82 258 86 696.4 0 86 259 104 696.4 0 104 260 91 696.4 0 91 261 93 696.4 0 93 262 77 696.4 0 77 263 89 696.4 0 89 264 60 696.4 0 60 265 81 696.4 0 81 266 102 696.4 0 102 267 336 696.4 0 336 268 473 696.4 0 473 269 591 696.4 0 591 270 315 696.4 0 315 271 144 696.4 0 144 272 134 696.4 0 134 273 155 696.4 0 155 274 191 696.4 0 191 275 336 696.4 0 336 276 567 696.4 0 567 277 632 696.4 0 632 278 574 696.4 0 574 279 641 696.4 0 641 280 204 696.4 0 204 281 264 696.4 0 264 282 160 696.4 0 160 283 123 696.4 0 123 284 88 696.4 0 88 285 83 696.4 0 83 286 95 696.4 0 95 287 106 696.4 0 106 288 174 696.4 0 174 289 122 696.4 0 122 290 154 696.4 0 154 291 92 696.4 0 92 292 93 696.4 0 93 293 120 696.4 0 120 294 154 696.4 0 154 295 141 696.4 0 141 296 123 696.4 0 123 297 73 696.4 0 73 298 77 696.4 0 77 299 49 696.4 0 49 300 71 696.4 0 71 301 104 696.4 0 104 Finished in 10.11 s (31 us/read; 1.94 M reads/minute). === Summary === Total reads processed: 326,989 Reads with adapters: 7,905 (2.4%) Reads that were too short: 76 (0.0%) Reads written (passing filters): 7,829 (2.4%) Total basepairs processed: 50,708,299 bp Total written (filtered): 2,144,094 bp (4.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 7905 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 4 0.0 3 0 0 4 16 75 0.0 3 0 75 17 7643 0.0 3 7479 157 7 18 21 0.0 3 1 16 3 1 19 11 0.0 3 1 0 9 1 20 16 0.0 3 0 0 0 16 28 1 0.0 3 0 0 0 1 29 3 0.0 3 0 0 0 3 35 1 0.0 3 0 0 0 1 40 1 0.0 3 0 0 0 1 43 3 0.0 3 3 44 2 0.0 3 0 0 0 2 46 1 0.0 3 0 0 0 1 49 2 0.0 3 0 0 0 2 51 1 0.0 3 0 0 0 1 52 6 0.0 3 0 0 0 6 53 2 0.0 3 0 0 0 2 55 14 0.0 3 0 0 0 14 63 4 0.0 3 0 0 0 4 65 1 0.0 3 0 0 1 66 1 0.0 3 0 0 0 1 67 3 0.0 3 1 0 0 2 68 1 0.0 3 0 0 0 1 73 3 0.0 3 0 0 1 2 78 1 0.0 3 0 0 0 1 84 2 0.0 3 2 85 1 0.0 3 0 0 0 1 87 19 0.0 3 0 0 0 19 90 1 0.0 3 0 0 0 1 92 1 0.0 3 0 0 0 1 97 1 0.0 3 0 0 0 1 105 1 0.0 3 0 0 0 1 110 1 0.0 3 0 0 0 1 112 1 0.0 3 0 0 0 1 115 2 0.0 3 0 0 0 2 125 5 0.0 3 0 0 0 5 126 4 0.0 3 0 0 0 4 127 5 0.0 3 0 0 0 5 128 3 0.0 3 0 0 0 3 129 2 0.0 3 0 0 0 2 130 1 0.0 3 0 0 0 1 131 4 0.0 3 0 0 0 4 132 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 139 1 0.0 3 0 0 0 1 141 8 0.0 3 0 0 0 8 142 2 0.0 3 0 0 0 2 143 2 0.0 3 0 0 0 2 148 1 0.0 3 0 0 0 1 154 2 0.0 3 0 1 0 1 155 1 0.0 3 1 185 1 0.0 3 0 0 0 1 188 1 0.0 3 0 0 0 1 189 1 0.0 3 0 0 1 191 1 0.0 3 0 0 0 1 192 1 0.0 3 0 0 0 1 193 1 0.0 3 0 0 0 1 194 1 0.0 3 0 0 0 1 199 1 0.0 3 0 0 0 1 254 1 0.0 3 0 0 0 1 279 1 0.0 3 0 0 0 1 280 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 0.27 s (34 us/read; 1.74 M reads/minute). === Summary === Total reads processed: 7,829 Reads with adapters: 55 (0.7%) Reads written (passing filters): 7,829 (100.0%) Total basepairs processed: 2,144,094 bp Total written (filtered): 2,143,911 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 55 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 49.1% C: 25.5% G: 16.4% T: 9.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 40 122.3 0 40 4 13 30.6 0 13 5 1 7.6 0 1 6 1 1.9 0 1