This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AGAGAC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... Finished in 170.21 s (49 us/read; 1.22 M reads/minute). === Summary === Total reads processed: 3,470,393 Reads with adapters: 626,458 (18.1%) Reads that were too short: 11,953 (0.3%) Reads written (passing filters): 614,505 (17.7%) Total basepairs processed: 1,044,588,293 bp Total written (filtered): 147,166,162 bp (14.1%) === Adapter 1 === Sequence: AGAGAC; Type: regular 5'; Length: 6; Trimmed: 626458 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 1259 847.3 0 1259 7 83462 847.3 0 83462 8 82725 847.3 0 82725 9 82 847.3 0 82 10 85 847.3 0 85 11 41 847.3 0 41 12 39 847.3 0 39 13 30 847.3 0 30 14 8 847.3 0 8 15 15 847.3 0 15 16 9 847.3 0 9 17 5 847.3 0 5 18 13 847.3 0 13 19 14 847.3 0 14 20 13 847.3 0 13 21 44 847.3 0 44 22 24 847.3 0 24 23 13 847.3 0 13 24 11 847.3 0 11 25 20 847.3 0 20 26 18 847.3 0 18 27 63 847.3 0 63 28 25 847.3 0 25 29 46 847.3 0 46 30 28 847.3 0 28 31 13 847.3 0 13 32 12 847.3 0 12 33 14 847.3 0 14 34 22 847.3 0 22 35 28 847.3 0 28 36 41 847.3 0 41 37 14 847.3 0 14 38 10 847.3 0 10 39 39 847.3 0 39 40 27 847.3 0 27 41 33 847.3 0 33 42 127 847.3 0 127 43 104 847.3 0 104 44 117 847.3 0 117 45 171 847.3 0 171 46 221 847.3 0 221 47 110 847.3 0 110 48 79 847.3 0 79 49 259 847.3 0 259 50 69 847.3 0 69 51 148 847.3 0 148 52 1213 847.3 0 1213 53 235 847.3 0 235 54 60 847.3 0 60 55 83 847.3 0 83 56 47 847.3 0 47 57 30 847.3 0 30 58 49 847.3 0 49 59 389 847.3 0 389 60 247 847.3 0 247 61 609 847.3 0 609 62 1431 847.3 0 1431 63 220 847.3 0 220 64 437 847.3 0 437 65 793 847.3 0 793 66 1173 847.3 0 1173 67 2490 847.3 0 2490 68 1080 847.3 0 1080 69 988 847.3 0 988 70 255 847.3 0 255 71 400 847.3 0 400 72 1025 847.3 0 1025 73 1074 847.3 0 1074 74 1643 847.3 0 1643 75 2702 847.3 0 2702 76 2973 847.3 0 2973 77 5905 847.3 0 5905 78 7528 847.3 0 7528 79 113009 847.3 0 113009 80 74344 847.3 0 74344 81 204628 847.3 0 204628 82 951 847.3 0 951 83 552 847.3 0 552 84 121 847.3 0 121 85 52 847.3 0 52 86 56 847.3 0 56 87 74 847.3 0 74 88 44 847.3 0 44 89 28 847.3 0 28 90 52 847.3 0 52 91 21 847.3 0 21 92 45 847.3 0 45 93 49 847.3 0 49 94 40 847.3 0 40 95 33 847.3 0 33 96 58 847.3 0 58 97 37 847.3 0 37 98 38 847.3 0 38 99 37 847.3 0 37 100 43 847.3 0 43 101 49 847.3 0 49 102 42 847.3 0 42 103 55 847.3 0 55 104 43 847.3 0 43 105 35 847.3 0 35 106 33 847.3 0 33 107 34 847.3 0 34 108 35 847.3 0 35 109 40 847.3 0 40 110 47 847.3 0 47 111 37 847.3 0 37 112 43 847.3 0 43 113 56 847.3 0 56 114 63 847.3 0 63 115 91 847.3 0 91 116 450 847.3 0 450 117 364 847.3 0 364 118 265 847.3 0 265 119 175 847.3 0 175 120 96 847.3 0 96 121 103 847.3 0 103 122 69 847.3 0 69 123 149 847.3 0 149 124 209 847.3 0 209 125 102 847.3 0 102 126 93 847.3 0 93 127 60 847.3 0 60 128 54 847.3 0 54 129 98 847.3 0 98 130 231 847.3 0 231 131 269 847.3 0 269 132 185 847.3 0 185 133 57 847.3 0 57 134 78 847.3 0 78 135 77 847.3 0 77 136 173 847.3 0 173 137 117 847.3 0 117 138 144 847.3 0 144 139 231 847.3 0 231 140 118 847.3 0 118 141 229 847.3 0 229 142 262 847.3 0 262 143 113 847.3 0 113 144 89 847.3 0 89 145 117 847.3 0 117 146 148 847.3 0 148 147 198 847.3 0 198 148 147 847.3 0 147 149 180 847.3 0 180 150 2488 847.3 0 2488 151 1639 847.3 0 1639 152 1054 847.3 0 1054 153 106 847.3 0 106 154 59 847.3 0 59 155 69 847.3 0 69 156 72 847.3 0 72 157 81 847.3 0 81 158 72 847.3 0 72 159 65 847.3 0 65 160 41 847.3 0 41 161 70 847.3 0 70 162 68 847.3 0 68 163 59 847.3 0 59 164 69 847.3 0 69 165 56 847.3 0 56 166 72 847.3 0 72 167 90 847.3 0 90 168 70 847.3 0 70 169 116 847.3 0 116 170 69 847.3 0 69 171 271 847.3 0 271 172 217 847.3 0 217 173 148 847.3 0 148 174 95 847.3 0 95 175 67 847.3 0 67 176 60 847.3 0 60 177 58 847.3 0 58 178 64 847.3 0 64 179 60 847.3 0 60 180 53 847.3 0 53 181 48 847.3 0 48 182 66 847.3 0 66 183 63 847.3 0 63 184 53 847.3 0 53 185 63 847.3 0 63 186 170 847.3 0 170 187 95 847.3 0 95 188 88 847.3 0 88 189 66 847.3 0 66 190 53 847.3 0 53 191 56 847.3 0 56 192 73 847.3 0 73 193 74 847.3 0 74 194 82 847.3 0 82 195 68 847.3 0 68 196 75 847.3 0 75 197 64 847.3 0 64 198 85 847.3 0 85 199 122 847.3 0 122 200 104 847.3 0 104 201 65 847.3 0 65 202 47 847.3 0 47 203 53 847.3 0 53 204 63 847.3 0 63 205 82 847.3 0 82 206 62 847.3 0 62 207 86 847.3 0 86 208 74 847.3 0 74 209 67 847.3 0 67 210 78 847.3 0 78 211 69 847.3 0 69 212 92 847.3 0 92 213 83 847.3 0 83 214 81 847.3 0 81 215 70 847.3 0 70 216 89 847.3 0 89 217 129 847.3 0 129 218 331 847.3 0 331 219 446 847.3 0 446 220 140 847.3 0 140 221 123 847.3 0 123 222 77 847.3 0 77 223 116 847.3 0 116 224 161 847.3 0 161 225 184 847.3 0 184 226 722 847.3 0 722 227 583 847.3 0 583 228 911 847.3 0 911 229 155 847.3 0 155 230 85 847.3 0 85 231 60 847.3 0 60 232 78 847.3 0 78 233 70 847.3 0 70 234 57 847.3 0 57 235 53 847.3 0 53 236 64 847.3 0 64 237 59 847.3 0 59 238 81 847.3 0 81 239 96 847.3 0 96 240 106 847.3 0 106 241 119 847.3 0 119 242 64 847.3 0 64 243 64 847.3 0 64 244 74 847.3 0 74 245 55 847.3 0 55 246 86 847.3 0 86 247 121 847.3 0 121 248 61 847.3 0 61 249 80 847.3 0 80 250 87 847.3 0 87 251 91 847.3 0 91 252 104 847.3 0 104 253 78 847.3 0 78 254 60 847.3 0 60 255 73 847.3 0 73 256 87 847.3 0 87 257 71 847.3 0 71 258 75 847.3 0 75 259 76 847.3 0 76 260 68 847.3 0 68 261 83 847.3 0 83 262 82 847.3 0 82 263 65 847.3 0 65 264 91 847.3 0 91 265 74 847.3 0 74 266 69 847.3 0 69 267 80 847.3 0 80 268 81 847.3 0 81 269 84 847.3 0 84 270 65 847.3 0 65 271 60 847.3 0 60 272 93 847.3 0 93 273 77 847.3 0 77 274 150 847.3 0 150 275 198 847.3 0 198 276 236 847.3 0 236 277 88 847.3 0 88 278 81 847.3 0 81 279 114 847.3 0 114 280 128 847.3 0 128 281 96 847.3 0 96 282 76 847.3 0 76 283 69 847.3 0 69 284 81 847.3 0 81 285 159 847.3 0 159 286 194 847.3 0 194 287 109 847.3 0 109 288 86 847.3 0 86 289 93 847.3 0 93 290 146 847.3 0 146 291 161 847.3 0 161 292 164 847.3 0 164 293 117 847.3 0 117 294 102 847.3 0 102 295 90 847.3 0 90 296 80 847.3 0 80 297 93 847.3 0 93 298 115 847.3 0 115 299 119 847.3 0 119 300 135 847.3 0 135 301 92 847.3 0 92 Finished in 38.41 s (63 us/read; 0.96 M reads/minute). === Summary === Total reads processed: 614,505 Reads with adapters: 70,349 (11.4%) Reads that were too short: 126 (0.0%) Reads written (passing filters): 70,223 (11.4%) Total basepairs processed: 147,166,162 bp Total written (filtered): 19,426,147 bp (13.2%) === Adapter 1 === Sequence: CCTAYGGGRBGCASCAG; Type: regular 5'; Length: 17; Trimmed: 70349 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 3 0.0 2 0 0 0 3 15 27 0.0 3 0 0 27 16 515 0.0 3 0 497 17 1 17 69247 0.0 3 68003 1193 46 5 18 152 0.0 3 9 138 5 19 27 0.0 3 6 1 17 3 20 81 0.0 3 0 0 0 81 23 2 0.0 3 0 0 0 2 26 1 0.0 3 0 0 0 1 29 2 0.0 3 0 0 0 2 31 2 0.0 3 0 0 0 2 41 41 0.0 3 0 0 0 41 44 10 0.0 3 0 0 0 10 48 1 0.0 3 0 0 0 1 50 1 0.0 3 0 0 0 1 54 1 0.0 3 0 0 0 1 55 8 0.0 3 0 0 0 8 56 1 0.0 3 0 0 0 1 57 8 0.0 3 0 0 0 8 58 4 0.0 3 0 0 1 3 61 1 0.0 3 0 0 0 1 64 2 0.0 3 0 0 1 1 65 1 0.0 3 0 0 0 1 67 1 0.0 3 0 0 0 1 70 2 0.0 3 0 0 0 2 74 1 0.0 3 0 0 0 1 76 5 0.0 3 0 0 0 5 79 3 0.0 3 0 0 0 3 87 1 0.0 3 0 0 0 1 89 1 0.0 3 1 94 1 0.0 3 0 0 0 1 95 1 0.0 3 0 0 0 1 101 1 0.0 3 0 0 0 1 102 1 0.0 3 0 0 0 1 103 2 0.0 3 0 0 0 2 106 11 0.0 3 0 0 0 11 107 15 0.0 3 0 0 0 15 108 7 0.0 3 0 0 0 7 109 1 0.0 3 0 0 0 1 110 9 0.0 3 0 0 0 9 111 2 0.0 3 0 0 0 2 112 1 0.0 3 0 0 0 1 113 1 0.0 3 0 0 0 1 114 1 0.0 3 0 0 0 1 115 1 0.0 3 0 0 0 1 116 1 0.0 3 0 0 0 1 118 1 0.0 3 0 0 0 1 120 1 0.0 3 0 0 0 1 121 1 0.0 3 0 0 0 1 123 1 0.0 3 0 0 0 1 125 1 0.0 3 0 0 0 1 126 1 0.0 3 0 1 127 3 0.0 3 0 0 0 3 129 1 0.0 3 0 0 0 1 130 1 0.0 3 0 0 0 1 131 1 0.0 3 0 0 0 1 132 1 0.0 3 0 0 0 1 133 4 0.0 3 0 0 0 4 134 4 0.0 3 0 0 0 4 135 2 0.0 3 0 0 0 2 137 1 0.0 3 0 0 0 1 145 1 0.0 3 0 0 0 1 146 1 0.0 3 0 0 0 1 148 1 0.0 3 0 0 0 1 149 3 0.0 3 0 0 0 3 150 1 0.0 3 0 0 0 1 153 2 0.0 3 0 0 0 2 161 1 0.0 3 0 0 0 1 162 2 0.0 3 0 0 1 1 163 1 0.0 3 0 0 0 1 165 1 0.0 3 0 0 0 1 166 2 0.0 3 0 0 0 2 167 1 0.0 3 0 0 0 1 168 1 0.0 3 0 0 0 1 171 2 0.0 3 0 0 0 2 172 1 0.0 3 0 0 0 1 176 1 0.0 3 0 0 1 182 1 0.0 3 0 0 0 1 183 2 0.0 3 0 0 0 2 184 1 0.0 3 0 0 0 1 186 1 0.0 3 0 0 0 1 189 1 0.0 3 0 0 0 1 192 2 0.0 3 0 0 0 2 193 1 0.0 3 0 0 0 1 196 1 0.0 3 0 0 0 1 201 1 0.0 3 0 0 0 1 204 2 0.0 3 0 0 1 1 207 5 0.0 3 0 0 0 5 208 12 0.0 3 0 1 0 11 209 16 0.0 3 0 0 0 16 210 21 0.0 3 0 0 1 20 211 7 0.0 3 0 0 0 7 217 3 0.0 3 0 0 0 3 218 2 0.0 3 0 0 0 2 220 1 0.0 3 0 0 0 1 221 1 0.0 3 0 0 0 1 222 3 0.0 3 0 0 0 3 227 1 0.0 3 0 0 0 1 236 1 0.0 3 0 0 0 1 238 1 0.0 3 0 0 0 1 270 2 0.0 3 0 0 0 2 271 1 0.0 3 0 0 0 1 280 1 0.0 3 0 0 0 1 281 2 0.0 3 0 0 0 2 282 1 0.0 3 0 0 1 284 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 4.04 s (58 us/read; 1.04 M reads/minute). === Summary === Total reads processed: 70,223 Reads with adapters: 264 (0.4%) Reads written (passing filters): 70,223 (100.0%) Total basepairs processed: 19,426,147 bp Total written (filtered): 19,425,256 bp (100.0%) === Adapter 1 === Sequence: TAATCTATGGGNNCATCAGG; Type: regular 3'; Length: 20; Trimmed: 264 times. No. of allowed errors: 0-9 bp: 0; 10-19 bp: 1; 20 bp: 2 Bases preceding removed adapters: A: 25.4% C: 7.6% G: 18.9% T: 48.1% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 216 1097.2 0 216 4 38 274.3 0 38 5 3 68.6 0 3 6 5 17.1 0 5 11 1 0.0 1 0 1 35 1 0.0 2 0 0 1