This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGGATG -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 140.99 s (48 us/read; 1.26 M reads/minute). === Summary === Total reads processed: 2,949,860 Reads with adapters: 291,773 (9.9%) Reads that were too short: 26,135 (0.9%) Reads written (passing filters): 265,638 (9.0%) Total basepairs processed: 887,907,860 bp Total written (filtered): 58,607,180 bp (6.6%) === Adapter 1 === Sequence: AGGATG; Type: regular 5'; Length: 6; Trimmed: 291773 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1262 720.2 0 1262 7 59350 720.2 0 59350 8 48377 720.2 0 48377 9 95 720.2 0 95 10 48 720.2 0 48 11 68 720.2 0 68 12 44 720.2 0 44 13 44 720.2 0 44 14 47 720.2 0 47 15 54 720.2 0 54 16 45 720.2 0 45 17 64 720.2 0 64 18 98 720.2 0 98 19 95 720.2 0 95 20 72 720.2 0 72 21 58 720.2 0 58 22 49 720.2 0 49 23 62 720.2 0 62 24 64 720.2 0 64 25 32 720.2 0 32 26 53 720.2 0 53 27 52 720.2 0 52 28 53 720.2 0 53 29 86 720.2 0 86 30 60 720.2 0 60 31 57 720.2 0 57 32 52 720.2 0 52 33 79 720.2 0 79 34 78 720.2 0 78 35 54 720.2 0 54 36 76 720.2 0 76 37 66 720.2 0 66 38 55 720.2 0 55 39 55 720.2 0 55 40 57 720.2 0 57 41 59 720.2 0 59 42 56 720.2 0 56 43 56 720.2 0 56 44 40 720.2 0 40 45 58 720.2 0 58 46 55 720.2 0 55 47 59 720.2 0 59 48 64 720.2 0 64 49 159 720.2 0 159 50 76 720.2 0 76 51 57 720.2 0 57 52 61 720.2 0 61 53 66 720.2 0 66 54 62 720.2 0 62 55 60 720.2 0 60 56 116 720.2 0 116 57 57 720.2 0 57 58 69 720.2 0 69 59 64 720.2 0 64 60 98 720.2 0 98 61 58 720.2 0 58 62 90 720.2 0 90 63 105 720.2 0 105 64 120 720.2 0 120 65 159 720.2 0 159 66 267 720.2 0 267 67 525 720.2 0 525 68 255 720.2 0 255 69 211 720.2 0 211 70 346 720.2 0 346 71 144 720.2 0 144 72 186 720.2 0 186 73 233 720.2 0 233 74 202 720.2 0 202 75 336 720.2 0 336 76 384 720.2 0 384 77 475 720.2 0 475 78 683 720.2 0 683 79 1333 720.2 0 1333 80 14544 720.2 0 14544 81 28460 720.2 0 28460 82 22962 720.2 0 22962 83 156 720.2 0 156 84 156 720.2 0 156 85 87 720.2 0 87 86 77 720.2 0 77 87 70 720.2 0 70 88 144 720.2 0 144 89 82 720.2 0 82 90 41 720.2 0 41 91 50 720.2 0 50 92 51 720.2 0 51 93 50 720.2 0 50 94 89 720.2 0 89 95 177 720.2 0 177 96 1371 720.2 0 1371 97 44 720.2 0 44 98 76 720.2 0 76 99 77 720.2 0 77 100 39 720.2 0 39 101 35 720.2 0 35 102 67 720.2 0 67 103 63 720.2 0 63 104 41 720.2 0 41 105 41 720.2 0 41 106 50 720.2 0 50 107 40 720.2 0 40 108 47 720.2 0 47 109 35 720.2 0 35 110 51 720.2 0 51 111 96 720.2 0 96 112 66 720.2 0 66 113 67 720.2 0 67 114 52 720.2 0 52 115 33 720.2 0 33 116 61 720.2 0 61 117 70 720.2 0 70 118 123 720.2 0 123 119 245 720.2 0 245 120 225 720.2 0 225 121 389 720.2 0 389 122 342 720.2 0 342 123 78 720.2 0 78 124 147 720.2 0 147 125 151 720.2 0 151 126 133 720.2 0 133 127 260 720.2 0 260 128 381 720.2 0 381 129 508 720.2 0 508 130 111 720.2 0 111 131 162 720.2 0 162 132 73 720.2 0 73 133 76 720.2 0 76 134 77 720.2 0 77 135 87 720.2 0 87 136 45 720.2 0 45 137 80 720.2 0 80 138 57 720.2 0 57 139 82 720.2 0 82 140 76 720.2 0 76 141 81 720.2 0 81 142 81 720.2 0 81 143 104 720.2 0 104 144 240 720.2 0 240 145 204 720.2 0 204 146 537 720.2 0 537 147 104 720.2 0 104 148 149 720.2 0 149 149 224 720.2 0 224 150 107 720.2 0 107 151 43 720.2 0 43 152 67 720.2 0 67 153 84 720.2 0 84 154 64 720.2 0 64 155 70 720.2 0 70 156 46 720.2 0 46 157 38 720.2 0 38 158 50 720.2 0 50 159 49 720.2 0 49 160 49 720.2 0 49 161 61 720.2 0 61 162 81 720.2 0 81 163 61 720.2 0 61 164 105 720.2 0 105 165 73 720.2 0 73 166 80 720.2 0 80 167 168 720.2 0 168 168 113 720.2 0 113 169 86 720.2 0 86 170 72 720.2 0 72 171 150 720.2 0 150 172 98 720.2 0 98 173 102 720.2 0 102 174 199 720.2 0 199 175 375 720.2 0 375 176 158 720.2 0 158 177 181 720.2 0 181 178 219 720.2 0 219 179 135 720.2 0 135 180 156 720.2 0 156 181 243 720.2 0 243 182 327 720.2 0 327 183 338 720.2 0 338 184 511 720.2 0 511 185 521 720.2 0 521 186 681 720.2 0 681 187 724 720.2 0 724 188 7047 720.2 0 7047 189 43064 720.2 0 43064 190 12165 720.2 0 12165 191 839 720.2 0 839 192 526 720.2 0 526 193 327 720.2 0 327 194 308 720.2 0 308 195 126 720.2 0 126 196 258 720.2 0 258 197 106 720.2 0 106 198 61 720.2 0 61 199 72 720.2 0 72 200 62 720.2 0 62 201 177 720.2 0 177 202 363 720.2 0 363 203 75 720.2 0 75 204 136 720.2 0 136 205 145 720.2 0 145 206 2034 720.2 0 2034 207 1078 720.2 0 1078 208 1480 720.2 0 1480 209 101 720.2 0 101 210 133 720.2 0 133 211 214 720.2 0 214 212 696 720.2 0 696 213 702 720.2 0 702 214 284 720.2 0 284 215 81 720.2 0 81 216 52 720.2 0 52 217 41 720.2 0 41 218 44 720.2 0 44 219 64 720.2 0 64 220 48 720.2 0 48 221 51 720.2 0 51 222 116 720.2 0 116 223 150 720.2 0 150 224 47 720.2 0 47 225 104 720.2 0 104 226 103 720.2 0 103 227 174 720.2 0 174 228 72 720.2 0 72 229 136 720.2 0 136 230 213 720.2 0 213 231 125 720.2 0 125 232 66 720.2 0 66 233 105 720.2 0 105 234 94 720.2 0 94 235 80 720.2 0 80 236 65 720.2 0 65 237 76 720.2 0 76 238 45 720.2 0 45 239 78 720.2 0 78 240 83 720.2 0 83 241 96 720.2 0 96 242 96 720.2 0 96 243 60 720.2 0 60 244 65 720.2 0 65 245 66 720.2 0 66 246 70 720.2 0 70 247 121 720.2 0 121 248 94 720.2 0 94 249 72 720.2 0 72 250 55 720.2 0 55 251 77 720.2 0 77 252 119 720.2 0 119 253 106 720.2 0 106 254 88 720.2 0 88 255 123 720.2 0 123 256 170 720.2 0 170 257 194 720.2 0 194 258 161 720.2 0 161 259 132 720.2 0 132 260 113 720.2 0 113 261 99 720.2 0 99 262 107 720.2 0 107 263 95 720.2 0 95 264 90 720.2 0 90 265 69 720.2 0 69 266 82 720.2 0 82 267 116 720.2 0 116 268 233 720.2 0 233 269 444 720.2 0 444 270 393 720.2 0 393 271 857 720.2 0 857 272 2339 720.2 0 2339 273 1622 720.2 0 1622 274 980 720.2 0 980 275 109 720.2 0 109 276 66 720.2 0 66 277 75 720.2 0 75 278 104 720.2 0 104 279 111 720.2 0 111 280 140 720.2 0 140 281 110 720.2 0 110 282 657 720.2 0 657 283 1764 720.2 0 1764 284 956 720.2 0 956 285 72 720.2 0 72 286 60 720.2 0 60 287 91 720.2 0 91 288 105 720.2 0 105 289 87 720.2 0 87 290 84 720.2 0 84 291 118 720.2 0 118 292 257 720.2 0 257 293 268 720.2 0 268 294 376 720.2 0 376 295 131 720.2 0 131 296 119 720.2 0 119 297 111 720.2 0 111 298 138 720.2 0 138 299 116 720.2 0 116 300 172 720.2 0 172 301 380 720.2 0 380 Finished in 17.98 s (68 us/read; 0.89 M reads/minute). === Summary === Total reads processed: 265,638 Reads with adapters: 51,447 (19.4%) Reads that were too short: 243 (0.1%) Reads written (passing filters): 51,204 (19.3%) Total basepairs processed: 58,607,180 bp Total written (filtered): 13,863,052 bp (23.7%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 51447 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 16 1 0.0 3 0 0 0 0 1 17 35 0.0 3 0 0 0 1 34 18 29 0.0 3 0 0 19 8 2 19 534 0.0 3 0 438 55 32 9 20 49190 0.0 4 46732 2061 292 81 24 21 174 0.0 4 51 115 5 1 2 22 34 0.0 4 23 4 7 23 125 0.0 4 0 0 0 96 29 24 1 0.0 4 0 0 0 0 1 25 4 0.0 4 0 0 0 2 2 26 4 0.0 4 1 1 0 0 2 27 1 0.0 4 1 29 2 0.0 4 0 0 0 0 2 30 1 0.0 4 0 0 0 1 31 1 0.0 4 1 35 1 0.0 4 0 0 0 0 1 47 1 0.0 4 0 0 0 0 1 48 1 0.0 4 0 0 0 0 1 55 41 0.0 4 0 0 0 0 41 60 1 0.0 4 0 0 0 0 1 78 2 0.0 4 0 0 0 0 2 79 1 0.0 4 0 0 0 0 1 80 2 0.0 4 0 0 0 0 2 88 1 0.0 4 0 0 0 0 1 91 1 0.0 4 0 0 0 0 1 100 1 0.0 4 0 0 0 0 1 102 1 0.0 4 0 0 0 0 1 112 1 0.0 4 0 0 0 0 1 113 2 0.0 4 0 0 0 0 2 121 1 0.0 4 0 0 0 0 1 124 1 0.0 4 0 0 0 0 1 125 2 0.0 4 0 0 0 0 2 126 8 0.0 4 0 0 0 0 8 127 1000 0.0 4 0 0 0 0 1000 128 4 0.0 4 0 0 0 0 4 129 7 0.0 4 0 0 0 0 7 130 2 0.0 4 0 0 0 0 2 131 1 0.0 4 0 0 0 0 1 134 1 0.0 4 0 0 0 0 1 138 1 0.0 4 0 0 0 0 1 139 2 0.0 4 0 0 0 0 2 143 1 0.0 4 0 0 0 0 1 148 1 0.0 4 0 0 0 0 1 153 2 0.0 4 0 0 0 0 2 154 1 0.0 4 0 0 0 0 1 155 106 0.0 4 0 0 0 4 102 156 64 0.0 4 0 0 0 3 61 157 6 0.0 4 0 0 0 0 6 158 1 0.0 4 0 0 0 0 1 162 1 0.0 4 0 0 0 0 1 163 1 0.0 4 0 0 0 1 165 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 1 172 1 0.0 4 0 1 174 1 0.0 4 0 0 0 0 1 179 1 0.0 4 0 0 0 0 1 183 1 0.0 4 0 0 0 0 1 187 1 0.0 4 0 0 0 0 1 190 1 0.0 4 0 0 0 0 1 191 2 0.0 4 0 0 0 0 2 192 2 0.0 4 0 0 0 0 2 196 3 0.0 4 0 1 0 0 2 197 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 210 1 0.0 4 0 0 0 0 1 212 1 0.0 4 0 0 0 0 1 214 1 0.0 4 0 0 0 0 1 220 1 0.0 4 0 0 0 0 1 227 1 0.0 4 0 0 0 0 1 228 6 0.0 4 0 0 0 1 5 229 1 0.0 4 0 0 0 0 1 231 1 0.0 4 0 0 0 0 1 233 1 0.0 4 0 0 0 0 1 235 1 0.0 4 0 0 0 0 1 236 1 0.0 4 0 0 0 0 1 256 1 0.0 4 0 0 0 0 1 261 1 0.0 4 0 0 0 0 1 283 1 0.0 4 0 0 0 0 1 293 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 3.05 s (60 us/read; 1.01 M reads/minute). === Summary === Total reads processed: 51,204 Reads with adapters: 9,134 (17.8%) Reads written (passing filters): 51,204 (100.0%) Total basepairs processed: 13,863,052 bp Total written (filtered): 13,761,097 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 9134 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 1.6% C: 5.6% G: 90.9% 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 90 800.1 0 90 4 16 200.0 0 16 5 2 50.0 0 2 7 1 3.1 0 1 9 43 0.2 0 2 41 10 351 0.0 1 14 337 11 8528 0.0 1 189 8339 12 79 0.0 1 6 73 13 1 0.0 1 0 1 14 6 0.0 1 0 6 15 1 0.0 1 0 1 44 1 0.0 1 0 1 90 1 0.0 1 1 151 2 0.0 1 1 1 159 1 0.0 1 0 1 200 6 0.0 1 5 1 208 1 0.0 1 0 1 209 4 0.0 1 2 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.