This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAAGA -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 70.43 s (26 us/read; 2.26 M reads/minute). === Summary === Total reads processed: 2,658,179 Reads with adapters: 478,339 (18.0%) Reads that were too short: 24,901 (0.9%) Reads written (passing filters): 453,438 (17.1%) Total basepairs processed: 800,111,879 bp Total written (filtered): 85,246,367 bp (10.7%) === Adapter 1 === Sequence: AGAAGA; Type: regular 5'; Length: 6; Trimmed: 478339 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1155 649.0 0 1155 7 37604 649.0 0 37604 8 42056 649.0 0 42056 9 111 649.0 0 111 10 66 649.0 0 66 11 74 649.0 0 74 12 87 649.0 0 87 13 70 649.0 0 70 14 68 649.0 0 68 15 79 649.0 0 79 16 67 649.0 0 67 17 54 649.0 0 54 18 76 649.0 0 76 19 42 649.0 0 42 20 46 649.0 0 46 21 50 649.0 0 50 22 68 649.0 0 68 23 60 649.0 0 60 24 60 649.0 0 60 25 102 649.0 0 102 26 135 649.0 0 135 27 98 649.0 0 98 28 270 649.0 0 270 29 209 649.0 0 209 30 168 649.0 0 168 31 73 649.0 0 73 32 67 649.0 0 67 33 64 649.0 0 64 34 83 649.0 0 83 35 120 649.0 0 120 36 192 649.0 0 192 37 285 649.0 0 285 38 94 649.0 0 94 39 96 649.0 0 96 40 149 649.0 0 149 41 110 649.0 0 110 42 143 649.0 0 143 43 154 649.0 0 154 44 84 649.0 0 84 45 90 649.0 0 90 46 102 649.0 0 102 47 56 649.0 0 56 48 93 649.0 0 93 49 82 649.0 0 82 50 89 649.0 0 89 51 136 649.0 0 136 52 80 649.0 0 80 53 110 649.0 0 110 54 118 649.0 0 118 55 87 649.0 0 87 56 76 649.0 0 76 57 66 649.0 0 66 58 93 649.0 0 93 59 82 649.0 0 82 60 102 649.0 0 102 61 144 649.0 0 144 62 137 649.0 0 137 63 212 649.0 0 212 64 103 649.0 0 103 65 73 649.0 0 73 66 93 649.0 0 93 67 93 649.0 0 93 68 124 649.0 0 124 69 112 649.0 0 112 70 171 649.0 0 171 71 104 649.0 0 104 72 118 649.0 0 118 73 156 649.0 0 156 74 191 649.0 0 191 75 2211 649.0 0 2211 76 220 649.0 0 220 77 263 649.0 0 263 78 150 649.0 0 150 79 343 649.0 0 343 80 414 649.0 0 414 81 1394 649.0 0 1394 82 659 649.0 0 659 83 1437 649.0 0 1437 84 478 649.0 0 478 85 365 649.0 0 365 86 472 649.0 0 472 87 292 649.0 0 292 88 222 649.0 0 222 89 261 649.0 0 261 90 285 649.0 0 285 91 199 649.0 0 199 92 270 649.0 0 270 93 260 649.0 0 260 94 274 649.0 0 274 95 256 649.0 0 256 96 240 649.0 0 240 97 255 649.0 0 255 98 217 649.0 0 217 99 239 649.0 0 239 100 245 649.0 0 245 101 352 649.0 0 352 102 290 649.0 0 290 103 392 649.0 0 392 104 471 649.0 0 471 105 745 649.0 0 745 106 338 649.0 0 338 107 361 649.0 0 361 108 653 649.0 0 653 109 382 649.0 0 382 110 391 649.0 0 391 111 622 649.0 0 622 112 680 649.0 0 680 113 767 649.0 0 767 114 591 649.0 0 591 115 932 649.0 0 932 116 977 649.0 0 977 117 1529 649.0 0 1529 118 22606 649.0 0 22606 119 16065 649.0 0 16065 120 36397 649.0 0 36397 121 2250 649.0 0 2250 122 1780 649.0 0 1780 123 4617 649.0 0 4617 124 471 649.0 0 471 125 425 649.0 0 425 126 763 649.0 0 763 127 568 649.0 0 568 128 563 649.0 0 563 129 680 649.0 0 680 130 588 649.0 0 588 131 666 649.0 0 666 132 1114 649.0 0 1114 133 771 649.0 0 771 134 818 649.0 0 818 135 1049 649.0 0 1049 136 1218 649.0 0 1218 137 1218 649.0 0 1218 138 1935 649.0 0 1935 139 32955 649.0 0 32955 140 14446 649.0 0 14446 141 33636 649.0 0 33636 142 8185 649.0 0 8185 143 2932 649.0 0 2932 144 2681 649.0 0 2681 145 32642 649.0 0 32642 146 26754 649.0 0 26754 147 33554 649.0 0 33554 148 7860 649.0 0 7860 149 5840 649.0 0 5840 150 1022 649.0 0 1022 151 979 649.0 0 979 152 527 649.0 0 527 153 398 649.0 0 398 154 569 649.0 0 569 155 1085 649.0 0 1085 156 604 649.0 0 604 157 1976 649.0 0 1976 158 1824 649.0 0 1824 159 895 649.0 0 895 160 472 649.0 0 472 161 420 649.0 0 420 162 470 649.0 0 470 163 541 649.0 0 541 164 1177 649.0 0 1177 165 10377 649.0 0 10377 166 7921 649.0 0 7921 167 4739 649.0 0 4739 168 419 649.0 0 419 169 251 649.0 0 251 170 185 649.0 0 185 171 239 649.0 0 239 172 249 649.0 0 249 173 201 649.0 0 201 174 914 649.0 0 914 175 507 649.0 0 507 176 263 649.0 0 263 177 161 649.0 0 161 178 171 649.0 0 171 179 179 649.0 0 179 180 149 649.0 0 149 181 193 649.0 0 193 182 202 649.0 0 202 183 190 649.0 0 190 184 197 649.0 0 197 185 187 649.0 0 187 186 187 649.0 0 187 187 185 649.0 0 185 188 190 649.0 0 190 189 213 649.0 0 213 190 189 649.0 0 189 191 195 649.0 0 195 192 263 649.0 0 263 193 257 649.0 0 257 194 352 649.0 0 352 195 248 649.0 0 248 196 247 649.0 0 247 197 202 649.0 0 202 198 189 649.0 0 189 199 492 649.0 0 492 200 521 649.0 0 521 201 332 649.0 0 332 202 182 649.0 0 182 203 177 649.0 0 177 204 184 649.0 0 184 205 160 649.0 0 160 206 194 649.0 0 194 207 191 649.0 0 191 208 190 649.0 0 190 209 208 649.0 0 208 210 222 649.0 0 222 211 241 649.0 0 241 212 151 649.0 0 151 213 177 649.0 0 177 214 190 649.0 0 190 215 166 649.0 0 166 216 365 649.0 0 365 217 1096 649.0 0 1096 218 903 649.0 0 903 219 551 649.0 0 551 220 177 649.0 0 177 221 159 649.0 0 159 222 146 649.0 0 146 223 157 649.0 0 157 224 132 649.0 0 132 225 140 649.0 0 140 226 187 649.0 0 187 227 216 649.0 0 216 228 218 649.0 0 218 229 128 649.0 0 128 230 139 649.0 0 139 231 142 649.0 0 142 232 129 649.0 0 129 233 132 649.0 0 132 234 135 649.0 0 135 235 130 649.0 0 130 236 132 649.0 0 132 237 164 649.0 0 164 238 165 649.0 0 165 239 168 649.0 0 168 240 122 649.0 0 122 241 170 649.0 0 170 242 143 649.0 0 143 243 139 649.0 0 139 244 145 649.0 0 145 245 123 649.0 0 123 246 198 649.0 0 198 247 197 649.0 0 197 248 242 649.0 0 242 249 163 649.0 0 163 250 135 649.0 0 135 251 119 649.0 0 119 252 143 649.0 0 143 253 125 649.0 0 125 254 132 649.0 0 132 255 172 649.0 0 172 256 158 649.0 0 158 257 179 649.0 0 179 258 165 649.0 0 165 259 150 649.0 0 150 260 168 649.0 0 168 261 176 649.0 0 176 262 192 649.0 0 192 263 148 649.0 0 148 264 212 649.0 0 212 265 156 649.0 0 156 266 143 649.0 0 143 267 187 649.0 0 187 268 145 649.0 0 145 269 124 649.0 0 124 270 169 649.0 0 169 271 157 649.0 0 157 272 137 649.0 0 137 273 153 649.0 0 153 274 136 649.0 0 136 275 144 649.0 0 144 276 121 649.0 0 121 277 143 649.0 0 143 278 185 649.0 0 185 279 155 649.0 0 155 280 145 649.0 0 145 281 150 649.0 0 150 282 147 649.0 0 147 283 146 649.0 0 146 284 147 649.0 0 147 285 143 649.0 0 143 286 135 649.0 0 135 287 203 649.0 0 203 288 241 649.0 0 241 289 175 649.0 0 175 290 195 649.0 0 195 291 212 649.0 0 212 292 143 649.0 0 143 293 174 649.0 0 174 294 213 649.0 0 213 295 192 649.0 0 192 296 238 649.0 0 238 297 237 649.0 0 237 298 305 649.0 0 305 299 359 649.0 0 359 300 422 649.0 0 422 301 5664 649.0 0 5664 Finished in 17.79 s (39 us/read; 1.53 M reads/minute). === Summary === Total reads processed: 453,438 Reads with adapters: 43,752 (9.6%) Reads that were too short: 102 (0.0%) Reads written (passing filters): 43,650 (9.6%) Total basepairs processed: 85,246,367 bp Total written (filtered): 11,869,362 bp (13.9%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 43752 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 17 1 0.0 3 0 0 0 0 1 18 15 0.0 3 0 0 14 0 1 19 456 0.0 3 0 448 6 2 20 41927 0.0 4 41174 714 28 9 2 21 142 0.0 4 37 100 3 1 1 22 29 0.0 4 13 11 5 23 647 0.0 4 589 14 0 41 3 24 3 0.0 4 3 26 1 0.0 4 0 0 0 1 32 1 0.0 4 0 0 0 0 1 41 1 0.0 4 0 0 0 0 1 42 2 0.0 4 0 0 0 0 2 44 1 0.0 4 0 0 0 0 1 46 1 0.0 4 1 50 10 0.0 4 0 0 0 0 10 51 1 0.0 4 0 0 0 0 1 52 1 0.0 4 0 0 0 0 1 53 13 0.0 4 0 0 0 0 13 56 2 0.0 4 0 0 0 0 2 58 1 0.0 4 0 0 0 0 1 61 1 0.0 4 0 0 0 0 1 62 1 0.0 4 1 73 1 0.0 4 0 0 0 0 1 74 2 0.0 4 0 0 0 1 1 75 2 0.0 4 0 0 0 0 2 76 3 0.0 4 0 0 0 0 3 77 4 0.0 4 1 0 0 0 3 78 3 0.0 4 0 0 0 0 3 79 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 83 3 0.0 4 0 0 0 1 2 84 1 0.0 4 0 1 85 1 0.0 4 0 0 0 0 1 86 2 0.0 4 0 0 0 0 2 91 1 0.0 4 0 0 0 0 1 92 1 0.0 4 0 0 0 0 1 94 1 0.0 4 1 96 1 0.0 4 0 0 0 0 1 97 3 0.0 4 0 0 0 0 3 99 4 0.0 4 0 0 0 0 4 100 1 0.0 4 0 0 0 0 1 105 1 0.0 4 0 0 0 0 1 107 2 0.0 4 0 0 0 0 2 109 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 116 1 0.0 4 0 0 0 0 1 122 3 0.0 4 0 0 0 0 3 123 2 0.0 4 0 0 0 0 2 124 7 0.0 4 0 0 0 0 7 125 3 0.0 4 0 0 0 0 3 126 8 0.0 4 0 0 0 0 8 127 348 0.0 4 0 0 0 0 348 128 3 0.0 4 0 1 0 0 2 130 1 0.0 4 0 0 0 0 1 138 2 0.0 4 0 0 0 0 2 142 1 0.0 4 0 0 0 0 1 143 29 0.0 4 0 0 0 0 29 146 1 0.0 4 0 0 0 0 1 147 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 151 1 0.0 4 1 152 2 0.0 4 0 1 0 0 1 153 2 0.0 4 1 0 0 0 1 154 3 0.0 4 1 1 0 0 1 155 3 0.0 4 0 0 0 0 3 156 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 161 1 0.0 4 0 0 0 0 1 164 1 0.0 4 0 0 0 0 1 165 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 172 2 0.0 4 0 0 0 0 2 174 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 180 2 0.0 4 1 0 0 0 1 182 1 0.0 4 0 0 0 0 1 194 1 0.0 4 0 0 0 0 1 201 1 0.0 4 0 0 0 0 1 211 1 0.0 4 0 0 0 0 1 212 2 0.0 4 1 0 0 0 1 220 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 223 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 262 1 0.0 4 0 0 0 0 1 264 1 0.0 4 0 0 0 0 1 280 1 0.0 4 0 0 0 0 1 282 1 0.0 4 0 0 0 0 1 288 2 0.0 4 0 0 0 0 2 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 1.52 s (35 us/read; 1.72 M reads/minute). === Summary === Total reads processed: 43,650 Reads with adapters: 3,622 (8.3%) Reads written (passing filters): 43,650 (100.0%) Total basepairs processed: 11,869,362 bp Total written (filtered): 11,827,831 bp (99.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 3622 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.8% C: 3.3% G: 93.0% T: 1.9% none/other: 0.0% WARNING: The adapter is preceded by "G" extremely often. The provided adapter sequence may be incomplete. To fix the problem, add "G" to the beginning of the adapter sequence. Overview of removed sequences length count expect max.err error counts 3 28 682.0 0 28 4 4 170.5 0 4 5 2 42.6 0 2 8 1 0.7 0 1 9 165 0.2 0 4 161 10 449 0.0 1 13 436 11 2943 0.0 1 36 2907 12 5 0.0 1 0 5 13 1 0.0 1 0 1 14 1 0.0 1 0 1 18 1 0.0 1 1 21 1 0.0 1 1 22 2 0.0 1 2 35 1 0.0 1 1 77 1 0.0 1 1 110 1 0.0 1 0 1 146 4 0.0 1 4 151 4 0.0 1 0 4 156 4 0.0 1 4 170 1 0.0 1 1 209 1 0.0 1 1 224 1 0.0 1 0 1 258 1 0.0 1 1 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.