This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGCCTC -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 135.31 s (46 us/read; 1.31 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 358,894 (12.2%) Reads that were too short: 15,964 (0.5%) Reads written (passing filters): 342,930 (11.6%) Total basepairs processed: 887,907,860 bp Total written (filtered): 84,343,612 bp (9.5%) === Adapter 1 === Sequence: AGCCTC; Type: regular 5'; Length: 6; Trimmed: 358894 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1020 720.2 0 1020 7 35325 720.2 0 35325 8 40129 720.2 0 40129 9 120 720.2 0 120 10 93 720.2 0 93 11 83 720.2 0 83 12 94 720.2 0 94 13 93 720.2 0 93 14 68 720.2 0 68 15 71 720.2 0 71 16 69 720.2 0 69 17 86 720.2 0 86 18 93 720.2 0 93 19 154 720.2 0 154 20 124 720.2 0 124 21 118 720.2 0 118 22 119 720.2 0 119 23 108 720.2 0 108 24 94 720.2 0 94 25 99 720.2 0 99 26 155 720.2 0 155 27 82 720.2 0 82 28 125 720.2 0 125 29 410 720.2 0 410 30 90 720.2 0 90 31 63 720.2 0 63 32 71 720.2 0 71 33 72 720.2 0 72 34 68 720.2 0 68 35 92 720.2 0 92 36 130 720.2 0 130 37 106 720.2 0 106 38 228 720.2 0 228 39 506 720.2 0 506 40 190 720.2 0 190 41 219 720.2 0 219 42 176 720.2 0 176 43 266 720.2 0 266 44 448 720.2 0 448 45 155 720.2 0 155 46 160 720.2 0 160 47 125 720.2 0 125 48 164 720.2 0 164 49 300 720.2 0 300 50 346 720.2 0 346 51 696 720.2 0 696 52 1249 720.2 0 1249 53 1445 720.2 0 1445 54 2734 720.2 0 2734 55 3473 720.2 0 3473 56 67632 720.2 0 67632 57 33164 720.2 0 33164 58 117932 720.2 0 117932 59 440 720.2 0 440 60 105 720.2 0 105 61 90 720.2 0 90 62 136 720.2 0 136 63 95 720.2 0 95 64 135 720.2 0 135 65 52 720.2 0 52 66 61 720.2 0 61 67 65 720.2 0 65 68 59 720.2 0 59 69 68 720.2 0 68 70 81 720.2 0 81 71 63 720.2 0 63 72 62 720.2 0 62 73 68 720.2 0 68 74 70 720.2 0 70 75 81 720.2 0 81 76 81 720.2 0 81 77 52 720.2 0 52 78 48 720.2 0 48 79 61 720.2 0 61 80 72 720.2 0 72 81 87 720.2 0 87 82 52 720.2 0 52 83 72 720.2 0 72 84 70 720.2 0 70 85 100 720.2 0 100 86 65 720.2 0 65 87 96 720.2 0 96 88 93 720.2 0 93 89 124 720.2 0 124 90 71 720.2 0 71 91 53 720.2 0 53 92 55 720.2 0 55 93 58 720.2 0 58 94 59 720.2 0 59 95 42 720.2 0 42 96 61 720.2 0 61 97 61 720.2 0 61 98 63 720.2 0 63 99 57 720.2 0 57 100 75 720.2 0 75 101 53 720.2 0 53 102 51 720.2 0 51 103 89 720.2 0 89 104 130 720.2 0 130 105 120 720.2 0 120 106 49 720.2 0 49 107 45 720.2 0 45 108 80 720.2 0 80 109 94 720.2 0 94 110 54 720.2 0 54 111 114 720.2 0 114 112 62 720.2 0 62 113 76 720.2 0 76 114 71 720.2 0 71 115 52 720.2 0 52 116 72 720.2 0 72 117 65 720.2 0 65 118 70 720.2 0 70 119 69 720.2 0 69 120 86 720.2 0 86 121 59 720.2 0 59 122 51 720.2 0 51 123 72 720.2 0 72 124 342 720.2 0 342 125 290 720.2 0 290 126 306 720.2 0 306 127 251 720.2 0 251 128 96 720.2 0 96 129 81 720.2 0 81 130 75 720.2 0 75 131 66 720.2 0 66 132 75 720.2 0 75 133 74 720.2 0 74 134 66 720.2 0 66 135 86 720.2 0 86 136 59 720.2 0 59 137 59 720.2 0 59 138 84 720.2 0 84 139 84 720.2 0 84 140 76 720.2 0 76 141 100 720.2 0 100 142 182 720.2 0 182 143 105 720.2 0 105 144 83 720.2 0 83 145 136 720.2 0 136 146 107 720.2 0 107 147 623 720.2 0 623 148 539 720.2 0 539 149 1677 720.2 0 1677 150 610 720.2 0 610 151 210 720.2 0 210 152 453 720.2 0 453 153 91 720.2 0 91 154 61 720.2 0 61 155 117 720.2 0 117 156 97 720.2 0 97 157 57 720.2 0 57 158 79 720.2 0 79 159 78 720.2 0 78 160 175 720.2 0 175 161 127 720.2 0 127 162 180 720.2 0 180 163 118 720.2 0 118 164 101 720.2 0 101 165 144 720.2 0 144 166 212 720.2 0 212 167 2277 720.2 0 2277 168 562 720.2 0 562 169 2655 720.2 0 2655 170 107 720.2 0 107 171 102 720.2 0 102 172 160 720.2 0 160 173 365 720.2 0 365 174 164 720.2 0 164 175 180 720.2 0 180 176 228 720.2 0 228 177 243 720.2 0 243 178 127 720.2 0 127 179 66 720.2 0 66 180 113 720.2 0 113 181 72 720.2 0 72 182 80 720.2 0 80 183 98 720.2 0 98 184 64 720.2 0 64 185 65 720.2 0 65 186 96 720.2 0 96 187 90 720.2 0 90 188 168 720.2 0 168 189 130 720.2 0 130 190 76 720.2 0 76 191 135 720.2 0 135 192 144 720.2 0 144 193 123 720.2 0 123 194 107 720.2 0 107 195 257 720.2 0 257 196 589 720.2 0 589 197 400 720.2 0 400 198 334 720.2 0 334 199 387 720.2 0 387 200 4450 720.2 0 4450 201 2709 720.2 0 2709 202 5702 720.2 0 5702 203 497 720.2 0 497 204 64 720.2 0 64 205 63 720.2 0 63 206 52 720.2 0 52 207 65 720.2 0 65 208 76 720.2 0 76 209 78 720.2 0 78 210 42 720.2 0 42 211 58 720.2 0 58 212 61 720.2 0 61 213 67 720.2 0 67 214 68 720.2 0 68 215 72 720.2 0 72 216 58 720.2 0 58 217 83 720.2 0 83 218 69 720.2 0 69 219 85 720.2 0 85 220 76 720.2 0 76 221 91 720.2 0 91 222 85 720.2 0 85 223 51 720.2 0 51 224 79 720.2 0 79 225 64 720.2 0 64 226 61 720.2 0 61 227 61 720.2 0 61 228 83 720.2 0 83 229 240 720.2 0 240 230 187 720.2 0 187 231 398 720.2 0 398 232 286 720.2 0 286 233 116 720.2 0 116 234 209 720.2 0 209 235 62 720.2 0 62 236 61 720.2 0 61 237 57 720.2 0 57 238 73 720.2 0 73 239 72 720.2 0 72 240 81 720.2 0 81 241 95 720.2 0 95 242 81 720.2 0 81 243 55 720.2 0 55 244 67 720.2 0 67 245 56 720.2 0 56 246 62 720.2 0 62 247 63 720.2 0 63 248 77 720.2 0 77 249 69 720.2 0 69 250 89 720.2 0 89 251 67 720.2 0 67 252 70 720.2 0 70 253 56 720.2 0 56 254 57 720.2 0 57 255 54 720.2 0 54 256 73 720.2 0 73 257 89 720.2 0 89 258 79 720.2 0 79 259 51 720.2 0 51 260 61 720.2 0 61 261 77 720.2 0 77 262 73 720.2 0 73 263 75 720.2 0 75 264 69 720.2 0 69 265 98 720.2 0 98 266 77 720.2 0 77 267 82 720.2 0 82 268 107 720.2 0 107 269 104 720.2 0 104 270 104 720.2 0 104 271 105 720.2 0 105 272 67 720.2 0 67 273 102 720.2 0 102 274 107 720.2 0 107 275 116 720.2 0 116 276 176 720.2 0 176 277 267 720.2 0 267 278 198 720.2 0 198 279 110 720.2 0 110 280 178 720.2 0 178 281 215 720.2 0 215 282 266 720.2 0 266 283 239 720.2 0 239 284 65 720.2 0 65 285 54 720.2 0 54 286 46 720.2 0 46 287 96 720.2 0 96 288 217 720.2 0 217 289 247 720.2 0 247 290 120 720.2 0 120 291 92 720.2 0 92 292 59 720.2 0 59 293 110 720.2 0 110 294 107 720.2 0 107 295 84 720.2 0 84 296 95 720.2 0 95 297 59 720.2 0 59 298 60 720.2 0 60 299 64 720.2 0 64 300 108 720.2 0 108 301 145 720.2 0 145 Finished in 22.32 s (65 us/read; 0.92 M reads/minute). === Summary === Total reads processed: 342,930 Reads with adapters: 41,180 (12.0%) Reads that were too short: 31 (0.0%) Reads written (passing filters): 41,149 (12.0%) Total basepairs processed: 84,343,612 bp Total written (filtered): 11,226,724 bp (13.3%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 41180 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 1 18 14 0.0 3 0 0 14 19 430 0.0 3 0 420 9 0 1 20 40122 0.0 4 39572 521 26 2 1 21 130 0.0 4 19 109 2 22 10 0.0 4 4 1 5 23 211 0.0 4 162 2 0 41 6 24 1 0.0 4 0 0 0 1 25 1 0.0 4 0 0 0 0 1 26 166 0.0 4 0 0 0 0 166 27 1 0.0 4 0 0 0 0 1 36 1 0.0 4 1 38 1 0.0 4 1 41 1 0.0 4 1 45 3 0.0 4 0 0 1 0 2 69 1 0.0 4 0 0 0 0 1 87 1 0.0 4 0 0 0 0 1 115 1 0.0 4 1 122 7 0.0 4 1 0 0 0 6 127 43 0.0 4 0 0 0 0 43 130 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 142 1 0.0 4 1 146 2 0.0 4 2 148 1 0.0 4 0 0 0 0 1 150 1 0.0 4 1 151 1 0.0 4 1 153 3 0.0 4 0 0 0 0 3 169 1 0.0 4 0 0 0 0 1 172 1 0.0 4 0 1 191 1 0.0 4 1 202 4 0.0 4 0 0 0 0 4 207 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 229 1 0.0 4 0 0 0 0 1 232 1 0.0 4 0 0 0 0 1 235 2 0.0 4 0 0 0 0 2 236 2 0.0 4 1 1 237 1 0.0 4 0 0 0 0 1 252 1 0.0 4 1 256 3 0.0 4 2 0 0 1 258 3 0.0 4 1 1 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 2.23 s (54 us/read; 1.11 M reads/minute). === Summary === Total reads processed: 41,149 Reads with adapters: 5,057 (12.3%) Reads written (passing filters): 41,149 (100.0%) Total basepairs processed: 11,226,724 bp Total written (filtered): 10,869,918 bp (96.8%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 5057 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.9% C: 60.8% G: 36.7% T: 0.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 25 643.0 0 25 4 8 160.7 0 8 5 1 40.2 0 1 9 29 0.2 0 0 29 10 82 0.0 1 2 80 11 1503 0.0 1 7 1496 12 1 0.0 1 0 1 13 1 0.0 1 0 1 15 1 0.0 1 0 1 19 6 0.0 1 6 24 1 0.0 1 0 1 63 1 0.0 1 1 89 10 0.0 1 8 2 90 2940 0.0 1 2631 309 91 72 0.0 1 63 9 92 23 0.0 1 21 2 96 1 0.0 1 1 100 3 0.0 1 3 103 1 0.0 1 1 121 1 0.0 1 1 151 1 0.0 1 0 1 176 4 0.0 1 4 177 263 0.0 1 248 15 178 3 0.0 1 3 179 3 0.0 1 3 180 19 0.0 1 17 2 181 1 0.0 1 1 209 9 0.0 1 1 8 211 1 0.0 1 0 1 227 1 0.0 1 1 230 39 0.0 1 36 3 231 2 0.0 1 2 232 1 0.0 1 1