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 170.00 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 416,063 (12.0%) Reads that were too short: 27,543 (0.8%) Reads written (passing filters): 388,520 (11.2%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 68,424,654 bp (6.6%) === Adapter 1 === Sequence: CACTCT; Type: regular 5'; Length: 6; Trimmed: 416063 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2085 847.3 0 2085 7 29023 847.3 0 29023 8 602 847.3 0 602 9 37582 847.3 0 37582 10 78 847.3 0 78 11 48 847.3 0 48 12 46 847.3 0 46 13 33 847.3 0 33 14 67 847.3 0 67 15 28 847.3 0 28 16 43 847.3 0 43 17 50 847.3 0 50 18 40 847.3 0 40 19 37 847.3 0 37 20 79 847.3 0 79 21 67 847.3 0 67 22 54 847.3 0 54 23 40 847.3 0 40 24 58 847.3 0 58 25 37 847.3 0 37 26 44 847.3 0 44 27 36 847.3 0 36 28 54 847.3 0 54 29 43 847.3 0 43 30 47 847.3 0 47 31 48 847.3 0 48 32 41 847.3 0 41 33 32 847.3 0 32 34 105 847.3 0 105 35 76 847.3 0 76 36 72 847.3 0 72 37 58 847.3 0 58 38 43 847.3 0 43 39 56 847.3 0 56 40 58 847.3 0 58 41 58 847.3 0 58 42 47 847.3 0 47 43 85 847.3 0 85 44 127 847.3 0 127 45 60 847.3 0 60 46 329 847.3 0 329 47 256 847.3 0 256 48 651 847.3 0 651 49 107 847.3 0 107 50 67 847.3 0 67 51 50 847.3 0 50 52 52 847.3 0 52 53 56 847.3 0 56 54 221 847.3 0 221 55 148 847.3 0 148 56 151 847.3 0 151 57 38 847.3 0 38 58 56 847.3 0 56 59 64 847.3 0 64 60 38 847.3 0 38 61 39 847.3 0 39 62 38 847.3 0 38 63 44 847.3 0 44 64 35 847.3 0 35 65 57 847.3 0 57 66 47 847.3 0 47 67 67 847.3 0 67 68 141 847.3 0 141 69 86 847.3 0 86 70 90 847.3 0 90 71 84 847.3 0 84 72 98 847.3 0 98 73 70 847.3 0 70 74 76 847.3 0 76 75 48 847.3 0 48 76 45 847.3 0 45 77 56 847.3 0 56 78 50 847.3 0 50 79 57 847.3 0 57 80 44 847.3 0 44 81 69 847.3 0 69 82 67 847.3 0 67 83 65 847.3 0 65 84 86 847.3 0 86 85 67 847.3 0 67 86 45 847.3 0 45 87 97 847.3 0 97 88 112 847.3 0 112 89 82 847.3 0 82 90 157 847.3 0 157 91 134 847.3 0 134 92 108 847.3 0 108 93 95 847.3 0 95 94 136 847.3 0 136 95 170 847.3 0 170 96 159 847.3 0 159 97 98 847.3 0 98 98 78 847.3 0 78 99 97 847.3 0 97 100 77 847.3 0 77 101 55 847.3 0 55 102 67 847.3 0 67 103 106 847.3 0 106 104 694 847.3 0 694 105 1036 847.3 0 1036 106 1919 847.3 0 1919 107 266 847.3 0 266 108 167 847.3 0 167 109 166 847.3 0 166 110 174 847.3 0 174 111 146 847.3 0 146 112 272 847.3 0 272 113 231 847.3 0 231 114 242 847.3 0 242 115 89 847.3 0 89 116 148 847.3 0 148 117 105 847.3 0 105 118 130 847.3 0 130 119 470 847.3 0 470 120 68 847.3 0 68 121 98 847.3 0 98 122 113 847.3 0 113 123 126 847.3 0 126 124 159 847.3 0 159 125 156 847.3 0 156 126 264 847.3 0 264 127 360 847.3 0 360 128 438 847.3 0 438 129 841 847.3 0 841 130 174 847.3 0 174 131 351 847.3 0 351 132 223 847.3 0 223 133 359 847.3 0 359 134 1236 847.3 0 1236 135 706 847.3 0 706 136 593 847.3 0 593 137 192 847.3 0 192 138 289 847.3 0 289 139 577 847.3 0 577 140 512 847.3 0 512 141 1005 847.3 0 1005 142 1290 847.3 0 1290 143 1468 847.3 0 1468 144 2827 847.3 0 2827 145 3754 847.3 0 3754 146 37141 847.3 0 37141 147 39386 847.3 0 39386 148 81108 847.3 0 81108 149 1160 847.3 0 1160 150 569 847.3 0 569 151 730 847.3 0 730 152 742 847.3 0 742 153 1147 847.3 0 1147 154 562 847.3 0 562 155 710 847.3 0 710 156 741 847.3 0 741 157 1076 847.3 0 1076 158 1257 847.3 0 1257 159 2341 847.3 0 2341 160 2746 847.3 0 2746 161 22114 847.3 0 22114 162 33053 847.3 0 33053 163 51868 847.3 0 51868 164 322 847.3 0 322 165 155 847.3 0 155 166 145 847.3 0 145 167 146 847.3 0 146 168 157 847.3 0 157 169 100 847.3 0 100 170 69 847.3 0 69 171 80 847.3 0 80 172 74 847.3 0 74 173 111 847.3 0 111 174 232 847.3 0 232 175 283 847.3 0 283 176 328 847.3 0 328 177 165 847.3 0 165 178 90 847.3 0 90 179 126 847.3 0 126 180 154 847.3 0 154 181 947 847.3 0 947 182 1604 847.3 0 1604 183 678 847.3 0 678 184 389 847.3 0 389 185 116 847.3 0 116 186 150 847.3 0 150 187 186 847.3 0 186 188 165 847.3 0 165 189 119 847.3 0 119 190 107 847.3 0 107 191 96 847.3 0 96 192 108 847.3 0 108 193 112 847.3 0 112 194 136 847.3 0 136 195 211 847.3 0 211 196 96 847.3 0 96 197 93 847.3 0 93 198 110 847.3 0 110 199 128 847.3 0 128 200 140 847.3 0 140 201 137 847.3 0 137 202 121 847.3 0 121 203 100 847.3 0 100 204 106 847.3 0 106 205 111 847.3 0 111 206 113 847.3 0 113 207 118 847.3 0 118 208 96 847.3 0 96 209 109 847.3 0 109 210 69 847.3 0 69 211 96 847.3 0 96 212 77 847.3 0 77 213 125 847.3 0 125 214 170 847.3 0 170 215 169 847.3 0 169 216 165 847.3 0 165 217 120 847.3 0 120 218 140 847.3 0 140 219 160 847.3 0 160 220 197 847.3 0 197 221 154 847.3 0 154 222 155 847.3 0 155 223 105 847.3 0 105 224 89 847.3 0 89 225 102 847.3 0 102 226 114 847.3 0 114 227 139 847.3 0 139 228 133 847.3 0 133 229 138 847.3 0 138 230 168 847.3 0 168 231 198 847.3 0 198 232 219 847.3 0 219 233 176 847.3 0 176 234 156 847.3 0 156 235 127 847.3 0 127 236 167 847.3 0 167 237 164 847.3 0 164 238 204 847.3 0 204 239 335 847.3 0 335 240 898 847.3 0 898 241 1692 847.3 0 1692 242 1755 847.3 0 1755 243 534 847.3 0 534 244 351 847.3 0 351 245 308 847.3 0 308 246 134 847.3 0 134 247 96 847.3 0 96 248 138 847.3 0 138 249 152 847.3 0 152 250 153 847.3 0 153 251 164 847.3 0 164 252 161 847.3 0 161 253 197 847.3 0 197 254 204 847.3 0 204 255 198 847.3 0 198 256 154 847.3 0 154 257 135 847.3 0 135 258 160 847.3 0 160 259 163 847.3 0 163 260 179 847.3 0 179 261 146 847.3 0 146 262 168 847.3 0 168 263 140 847.3 0 140 264 109 847.3 0 109 265 139 847.3 0 139 266 153 847.3 0 153 267 473 847.3 0 473 268 976 847.3 0 976 269 1299 847.3 0 1299 270 867 847.3 0 867 271 292 847.3 0 292 272 294 847.3 0 294 273 275 847.3 0 275 274 317 847.3 0 317 275 407 847.3 0 407 276 393 847.3 0 393 277 565 847.3 0 565 278 830 847.3 0 830 279 960 847.3 0 960 280 657 847.3 0 657 281 462 847.3 0 462 282 394 847.3 0 394 283 362 847.3 0 362 284 220 847.3 0 220 285 139 847.3 0 139 286 143 847.3 0 143 287 156 847.3 0 156 288 271 847.3 0 271 289 233 847.3 0 233 290 232 847.3 0 232 291 166 847.3 0 166 292 204 847.3 0 204 293 201 847.3 0 201 294 330 847.3 0 330 295 295 847.3 0 295 296 307 847.3 0 307 297 164 847.3 0 164 298 111 847.3 0 111 299 94 847.3 0 94 300 119 847.3 0 119 301 149 847.3 0 149 Finished in 22.17 s (57 us/read; 1.05 M reads/minute). === Summary === Total reads processed: 388,520 Reads with adapters: 39,080 (10.1%) Reads that were too short: 220 (0.1%) Reads written (passing filters): 38,860 (10.0%) Total basepairs processed: 68,424,654 bp Total written (filtered): 10,652,157 bp (15.6%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 39080 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 11 0.0 2 0 0 0 11 15 36 0.0 3 0 0 31 5 16 592 0.0 3 0 547 32 13 17 37774 0.0 3 35875 1593 244 62 18 105 0.0 3 3 93 5 4 19 98 0.0 3 1 0 58 39 20 14 0.0 3 0 0 0 14 21 1 0.0 3 0 0 0 1 25 2 0.0 3 1 0 0 1 29 2 0.0 3 1 0 0 1 30 1 0.0 3 0 1 36 1 0.0 3 0 0 0 1 37 1 0.0 3 0 0 0 1 38 2 0.0 3 0 0 0 2 39 2 0.0 3 1 0 0 1 40 1 0.0 3 0 0 0 1 42 2 0.0 3 0 0 0 2 44 5 0.0 3 0 0 0 5 45 1 0.0 3 0 0 0 1 46 11 0.0 3 0 0 1 10 47 1 0.0 3 0 0 0 1 49 1 0.0 3 0 0 0 1 50 2 0.0 3 0 0 0 2 51 5 0.0 3 0 0 0 5 52 4 0.0 3 0 0 0 4 53 9 0.0 3 0 0 0 9 54 1 0.0 3 0 0 0 1 55 45 0.0 3 0 0 0 45 56 4 0.0 3 0 0 0 4 60 1 0.0 3 0 0 0 1 61 1 0.0 3 0 0 0 1 63 1 0.0 3 0 0 0 1 65 4 0.0 3 0 0 0 4 67 12 0.0 3 0 0 0 12 68 3 0.0 3 0 0 0 3 69 1 0.0 3 0 0 0 1 70 7 0.0 3 0 0 0 7 72 2 0.0 3 0 1 0 1 77 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 5 0.0 3 0 0 0 5 86 4 0.0 3 0 0 0 4 87 89 0.0 3 0 0 3 86 88 4 0.0 3 0 0 0 4 89 2 0.0 3 0 0 0 2 90 8 0.0 3 0 0 0 8 91 2 0.0 3 0 1 0 1 92 1 0.0 3 0 0 0 1 97 2 0.0 3 0 0 0 2 99 1 0.0 3 0 0 1 101 2 0.0 3 0 0 0 2 102 1 0.0 3 0 0 0 1 108 1 0.0 3 0 0 0 1 111 1 0.0 3 0 0 0 1 112 7 0.0 3 0 0 0 7 115 2 0.0 3 0 0 0 2 116 2 0.0 3 0 0 0 2 119 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 125 7 0.0 3 0 0 0 7 126 2 0.0 3 0 0 0 2 127 15 0.0 3 0 0 0 15 129 4 0.0 3 0 0 0 4 130 1 0.0 3 0 0 0 1 131 12 0.0 3 0 0 0 12 132 1 0.0 3 0 0 0 1 133 1 0.0 3 0 0 0 1 134 2 0.0 3 0 0 0 2 135 1 0.0 3 0 0 0 1 136 15 0.0 3 0 0 1 14 137 3 0.0 3 0 0 1 2 138 3 0.0 3 0 0 1 2 139 5 0.0 3 0 0 0 5 140 5 0.0 3 0 0 0 5 141 13 0.0 3 0 0 0 13 142 12 0.0 3 0 0 0 12 143 4 0.0 3 0 0 0 4 145 1 0.0 3 0 0 0 1 146 2 0.0 3 0 0 0 2 147 4 0.0 3 0 0 0 4 148 1 0.0 3 0 0 0 1 149 1 0.0 3 0 0 0 1 150 1 0.0 3 0 0 0 1 153 1 0.0 3 0 0 0 1 156 1 0.0 3 0 0 0 1 157 1 0.0 3 0 0 0 1 161 1 0.0 3 0 0 0 1 162 1 0.0 3 0 0 0 1 163 3 0.0 3 0 0 0 3 166 1 0.0 3 0 0 0 1 167 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 169 1 0.0 3 0 0 1 172 3 0.0 3 0 0 0 3 173 1 0.0 3 0 0 0 1 179 2 0.0 3 0 0 0 2 183 3 0.0 3 0 0 0 3 187 1 0.0 3 0 0 0 1 188 3 0.0 3 0 0 0 3 190 1 0.0 3 0 0 0 1 191 1 0.0 3 0 0 0 1 198 1 0.0 3 0 0 0 1 199 2 0.0 3 0 0 0 2 200 1 0.0 3 0 0 0 1 205 2 0.0 3 0 0 0 2 217 1 0.0 3 0 0 0 1 221 2 0.0 3 0 0 0 2 230 1 0.0 3 0 0 0 1 238 1 0.0 3 0 0 0 1 239 1 0.0 3 0 0 0 1 241 2 0.0 3 0 0 0 2 257 1 0.0 3 0 0 0 1 275 1 0.0 3 0 0 0 1 278 1 0.0 3 0 0 0 1 279 1 0.0 3 0 0 0 1 281 6 0.0 3 0 0 0 6 282 3 0.0 3 0 0 0 3 283 1 0.0 3 0 0 0 1 285 1 0.0 3 0 0 0 1 288 1 0.0 3 0 0 0 1 289 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 2.09 s (54 us/read; 1.12 M reads/minute). === Summary === Total reads processed: 38,860 Reads with adapters: 702 (1.8%) Reads written (passing filters): 38,860 (100.0%) Total basepairs processed: 10,652,157 bp Total written (filtered): 10,650,047 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 702 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 83.9% C: 9.3% G: 5.0% T: 1.9% 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 3 698 607.2 0 698 4 4 151.8 0 4 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.