This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCACT -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 174.46 s (48 us/read; 1.25 M reads/minute). === Summary === Total reads processed: 3,634,272 Reads with adapters: 360,183 (9.9%) Reads that were too short: 25,716 (0.7%) Reads written (passing filters): 334,467 (9.2%) Total basepairs processed: 1,093,915,872 bp Total written (filtered): 63,786,024 bp (5.8%) === Adapter 1 === Sequence: AGCACT; Type: regular 5'; Length: 6; Trimmed: 360183 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 2085 887.3 0 2085 7 3586 887.3 0 3586 8 2955 887.3 0 2955 9 65 887.3 0 65 10 60 887.3 0 60 11 193 887.3 0 193 12 254 887.3 0 254 13 212 887.3 0 212 14 103 887.3 0 103 15 56 887.3 0 56 16 41 887.3 0 41 17 51 887.3 0 51 18 58 887.3 0 58 19 50 887.3 0 50 20 77 887.3 0 77 21 86 887.3 0 86 22 55 887.3 0 55 23 74 887.3 0 74 24 62 887.3 0 62 25 414 887.3 0 414 26 374 887.3 0 374 27 97 887.3 0 97 28 49 887.3 0 49 29 80 887.3 0 80 30 57 887.3 0 57 31 77 887.3 0 77 32 79 887.3 0 79 33 55 887.3 0 55 34 70 887.3 0 70 35 101 887.3 0 101 36 101 887.3 0 101 37 99 887.3 0 99 38 96 887.3 0 96 39 60 887.3 0 60 40 89 887.3 0 89 41 78 887.3 0 78 42 77 887.3 0 77 43 151 887.3 0 151 44 96 887.3 0 96 45 65 887.3 0 65 46 86 887.3 0 86 47 97 887.3 0 97 48 79 887.3 0 79 49 71 887.3 0 71 50 84 887.3 0 84 51 75 887.3 0 75 52 75 887.3 0 75 53 71 887.3 0 71 54 117 887.3 0 117 55 128 887.3 0 128 56 180 887.3 0 180 57 84 887.3 0 84 58 64 887.3 0 64 59 64 887.3 0 64 60 132 887.3 0 132 61 113 887.3 0 113 62 133 887.3 0 133 63 103 887.3 0 103 64 164 887.3 0 164 65 1254 887.3 0 1254 66 874 887.3 0 874 67 781 887.3 0 781 68 96 887.3 0 96 69 84 887.3 0 84 70 70 887.3 0 70 71 80 887.3 0 80 72 109 887.3 0 109 73 82 887.3 0 82 74 119 887.3 0 119 75 75 887.3 0 75 76 57 887.3 0 57 77 112 887.3 0 112 78 165 887.3 0 165 79 174 887.3 0 174 80 381 887.3 0 381 81 184 887.3 0 184 82 172 887.3 0 172 83 113 887.3 0 113 84 113 887.3 0 113 85 103 887.3 0 103 86 174 887.3 0 174 87 180 887.3 0 180 88 244 887.3 0 244 89 253 887.3 0 253 90 435 887.3 0 435 91 1219 887.3 0 1219 92 339 887.3 0 339 93 432 887.3 0 432 94 739 887.3 0 739 95 428 887.3 0 428 96 435 887.3 0 435 97 714 887.3 0 714 98 801 887.3 0 801 99 944 887.3 0 944 100 964 887.3 0 964 101 1609 887.3 0 1609 102 2350 887.3 0 2350 103 4999 887.3 0 4999 104 93121 887.3 0 93121 105 89388 887.3 0 89388 106 53107 887.3 0 53107 107 251 887.3 0 251 108 59 887.3 0 59 109 54 887.3 0 54 110 89 887.3 0 89 111 138 887.3 0 138 112 125 887.3 0 125 113 104 887.3 0 104 114 95 887.3 0 95 115 101 887.3 0 101 116 109 887.3 0 109 117 83 887.3 0 83 118 65 887.3 0 65 119 172 887.3 0 172 120 146 887.3 0 146 121 182 887.3 0 182 122 101 887.3 0 101 123 137 887.3 0 137 124 701 887.3 0 701 125 571 887.3 0 571 126 930 887.3 0 930 127 121 887.3 0 121 128 99 887.3 0 99 129 131 887.3 0 131 130 120 887.3 0 120 131 75 887.3 0 75 132 120 887.3 0 120 133 85 887.3 0 85 134 96 887.3 0 96 135 78 887.3 0 78 136 99 887.3 0 99 137 91 887.3 0 91 138 146 887.3 0 146 139 249 887.3 0 249 140 229 887.3 0 229 141 223 887.3 0 223 142 156 887.3 0 156 143 75 887.3 0 75 144 112 887.3 0 112 145 111 887.3 0 111 146 191 887.3 0 191 147 194 887.3 0 194 148 287 887.3 0 287 149 84 887.3 0 84 150 94 887.3 0 94 151 400 887.3 0 400 152 404 887.3 0 404 153 524 887.3 0 524 154 280 887.3 0 280 155 273 887.3 0 273 156 361 887.3 0 361 157 648 887.3 0 648 158 1002 887.3 0 1002 159 14434 887.3 0 14434 160 13105 887.3 0 13105 161 15523 887.3 0 15523 162 181 887.3 0 181 163 109 887.3 0 109 164 121 887.3 0 121 165 86 887.3 0 86 166 103 887.3 0 103 167 237 887.3 0 237 168 421 887.3 0 421 169 331 887.3 0 331 170 99 887.3 0 99 171 127 887.3 0 127 172 230 887.3 0 230 173 272 887.3 0 272 174 143 887.3 0 143 175 87 887.3 0 87 176 91 887.3 0 91 177 94 887.3 0 94 178 98 887.3 0 98 179 109 887.3 0 109 180 120 887.3 0 120 181 122 887.3 0 122 182 103 887.3 0 103 183 131 887.3 0 131 184 230 887.3 0 230 185 227 887.3 0 227 186 211 887.3 0 211 187 209 887.3 0 209 188 227 887.3 0 227 189 177 887.3 0 177 190 142 887.3 0 142 191 78 887.3 0 78 192 106 887.3 0 106 193 114 887.3 0 114 194 110 887.3 0 110 195 92 887.3 0 92 196 98 887.3 0 98 197 148 887.3 0 148 198 138 887.3 0 138 199 210 887.3 0 210 200 882 887.3 0 882 201 739 887.3 0 739 202 962 887.3 0 962 203 94 887.3 0 94 204 91 887.3 0 91 205 163 887.3 0 163 206 182 887.3 0 182 207 203 887.3 0 203 208 155 887.3 0 155 209 152 887.3 0 152 210 85 887.3 0 85 211 89 887.3 0 89 212 87 887.3 0 87 213 124 887.3 0 124 214 110 887.3 0 110 215 111 887.3 0 111 216 139 887.3 0 139 217 98 887.3 0 98 218 162 887.3 0 162 219 242 887.3 0 242 220 319 887.3 0 319 221 158 887.3 0 158 222 97 887.3 0 97 223 100 887.3 0 100 224 115 887.3 0 115 225 117 887.3 0 117 226 281 887.3 0 281 227 284 887.3 0 284 228 363 887.3 0 363 229 221 887.3 0 221 230 170 887.3 0 170 231 111 887.3 0 111 232 124 887.3 0 124 233 106 887.3 0 106 234 125 887.3 0 125 235 81 887.3 0 81 236 140 887.3 0 140 237 167 887.3 0 167 238 190 887.3 0 190 239 261 887.3 0 261 240 1510 887.3 0 1510 241 2153 887.3 0 2153 242 1780 887.3 0 1780 243 485 887.3 0 485 244 105 887.3 0 105 245 86 887.3 0 86 246 100 887.3 0 100 247 142 887.3 0 142 248 128 887.3 0 128 249 117 887.3 0 117 250 128 887.3 0 128 251 124 887.3 0 124 252 120 887.3 0 120 253 143 887.3 0 143 254 207 887.3 0 207 255 279 887.3 0 279 256 306 887.3 0 306 257 211 887.3 0 211 258 144 887.3 0 144 259 102 887.3 0 102 260 109 887.3 0 109 261 129 887.3 0 129 262 122 887.3 0 122 263 101 887.3 0 101 264 100 887.3 0 100 265 143 887.3 0 143 266 148 887.3 0 148 267 208 887.3 0 208 268 182 887.3 0 182 269 186 887.3 0 186 270 187 887.3 0 187 271 145 887.3 0 145 272 157 887.3 0 157 273 173 887.3 0 173 274 338 887.3 0 338 275 283 887.3 0 283 276 217 887.3 0 217 277 215 887.3 0 215 278 882 887.3 0 882 279 500 887.3 0 500 280 800 887.3 0 800 281 577 887.3 0 577 282 882 887.3 0 882 283 551 887.3 0 551 284 184 887.3 0 184 285 127 887.3 0 127 286 125 887.3 0 125 287 142 887.3 0 142 288 148 887.3 0 148 289 127 887.3 0 127 290 137 887.3 0 137 291 143 887.3 0 143 292 139 887.3 0 139 293 184 887.3 0 184 294 248 887.3 0 248 295 265 887.3 0 265 296 164 887.3 0 164 297 116 887.3 0 116 298 114 887.3 0 114 299 193 887.3 0 193 300 351 887.3 0 351 301 325 887.3 0 325 Finished in 21.72 s (65 us/read; 0.92 M reads/minute). === Summary === Total reads processed: 334,467 Reads with adapters: 31,526 (9.4%) Reads that were too short: 96 (0.0%) Reads written (passing filters): 31,430 (9.4%) Total basepairs processed: 63,786,024 bp Total written (filtered): 5,562,083 bp (8.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 31526 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 18 1 0.0 3 0 0 1 19 44 0.0 3 0 40 0 3 1 20 2913 0.0 4 2786 99 23 2 3 21 19 0.0 4 12 5 1 1 22 1 0.0 4 0 0 1 23 12 0.0 4 1 1 0 7 3 25 1 0.0 4 0 0 0 0 1 27 5 0.0 4 1 0 0 0 4 28 1 0.0 4 0 0 0 0 1 29 7 0.0 4 0 0 0 0 7 30 28119 0.0 4 0 0 0 1 28118 31 1 0.0 4 0 0 0 0 1 32 6 0.0 4 0 0 0 0 6 33 36 0.0 4 0 0 0 0 36 43 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 55 3 0.0 4 0 0 0 0 3 59 1 0.0 4 0 0 0 0 1 68 1 0.0 4 0 0 0 0 1 69 8 0.0 4 0 0 0 0 8 74 1 0.0 4 0 0 0 0 1 76 1 0.0 4 0 0 0 0 1 78 1 0.0 4 0 0 0 0 1 79 1 0.0 4 0 0 0 0 1 80 1 0.0 4 0 0 0 0 1 81 1 0.0 4 0 0 0 0 1 94 1 0.0 4 0 0 0 0 1 95 1 0.0 4 0 0 0 0 1 99 1 0.0 4 0 0 0 0 1 102 1 0.0 4 1 107 2 0.0 4 0 1 0 0 1 109 4 0.0 4 0 0 0 0 4 110 1 0.0 4 0 0 0 0 1 111 2 0.0 4 0 0 0 0 2 112 1 0.0 4 0 0 0 0 1 114 1 0.0 4 0 0 0 0 1 116 1 0.0 4 0 0 0 0 1 122 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 126 6 0.0 4 0 0 0 0 6 127 196 0.0 4 0 0 0 0 196 128 3 0.0 4 0 0 0 0 3 129 2 0.0 4 0 0 0 0 2 130 32 0.0 4 0 0 0 0 32 135 2 0.0 4 0 0 0 0 2 136 1 0.0 4 0 0 0 1 137 6 0.0 4 0 0 0 0 6 138 12 0.0 4 0 0 0 1 11 139 2 0.0 4 0 0 0 0 2 141 1 0.0 4 0 0 0 0 1 145 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 160 3 0.0 4 0 0 0 0 3 161 2 0.0 4 0 0 0 0 2 167 1 0.0 4 0 0 0 0 1 171 1 0.0 4 0 0 0 0 1 176 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 185 14 0.0 4 0 0 0 0 14 186 6 0.0 4 0 0 0 0 6 187 1 0.0 4 0 0 0 0 1 188 6 0.0 4 0 0 0 0 6 189 2 0.0 4 0 0 0 0 2 190 1 0.0 4 0 0 0 0 1 191 3 0.0 4 0 0 0 0 3 195 1 0.0 4 0 0 0 0 1 197 4 0.0 4 0 0 0 1 3 199 1 0.0 4 0 0 0 0 1 200 2 0.0 4 0 0 0 0 2 215 1 0.0 4 0 0 0 0 1 218 1 0.0 4 0 0 0 0 1 228 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 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 1.48 s (47 us/read; 1.27 M reads/minute). === Summary === Total reads processed: 31,430 Reads with adapters: 1,048 (3.3%) Reads written (passing filters): 31,430 (100.0%) Total basepairs processed: 5,562,083 bp Total written (filtered): 5,553,177 bp (99.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 1048 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 29.8% C: 7.7% G: 60.4% T: 2.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 172 491.1 0 172 4 168 122.8 0 168 5 3 30.7 0 3 6 1 7.7 0 1 9 2 0.1 0 1 1 10 47 0.0 1 2 45 11 653 0.0 1 12 641 12 1 0.0 1 0 1 14 1 0.0 1 0 1