This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g AATGAA -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 181.44 s (34 us/read; 1.76 M reads/minute). === Summary === Total reads processed: 5,333,634 Reads with adapters: 1,039,569 (19.5%) Reads that were too short: 363,611 (6.8%) Reads written (passing filters): 675,958 (12.7%) Total basepairs processed: 1,605,423,834 bp Total written (filtered): 118,349,953 bp (7.4%) === Adapter 1 === Sequence: AATGAA; Type: regular 5'; Length: 6; Trimmed: 1039569 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 235 1302.2 0 235 7 372 1302.2 0 372 8 4821 1302.2 0 4821 9 26010 1302.2 0 26010 10 57 1302.2 0 57 11 31 1302.2 0 31 12 17 1302.2 0 17 13 6 1302.2 0 6 14 15 1302.2 0 15 15 28 1302.2 0 28 16 20 1302.2 0 20 17 7 1302.2 0 7 18 12 1302.2 0 12 19 22 1302.2 0 22 20 13 1302.2 0 13 21 17 1302.2 0 17 22 12 1302.2 0 12 23 30 1302.2 0 30 24 58 1302.2 0 58 25 24 1302.2 0 24 26 13 1302.2 0 13 27 16 1302.2 0 16 28 39 1302.2 0 39 29 32 1302.2 0 32 30 191 1302.2 0 191 31 65 1302.2 0 65 32 20 1302.2 0 20 33 21 1302.2 0 21 34 18 1302.2 0 18 35 22 1302.2 0 22 36 12 1302.2 0 12 37 105 1302.2 0 105 38 21 1302.2 0 21 39 11 1302.2 0 11 40 12 1302.2 0 12 41 21 1302.2 0 21 42 21 1302.2 0 21 43 11 1302.2 0 11 44 18 1302.2 0 18 45 33 1302.2 0 33 46 61 1302.2 0 61 47 68 1302.2 0 68 48 21 1302.2 0 21 49 17 1302.2 0 17 50 22 1302.2 0 22 51 27 1302.2 0 27 52 25 1302.2 0 25 53 13 1302.2 0 13 54 10 1302.2 0 10 55 14 1302.2 0 14 56 12 1302.2 0 12 57 16 1302.2 0 16 58 199 1302.2 0 199 59 78 1302.2 0 78 60 26 1302.2 0 26 61 13 1302.2 0 13 62 61 1302.2 0 61 63 41 1302.2 0 41 64 48 1302.2 0 48 65 31 1302.2 0 31 66 32 1302.2 0 32 67 31 1302.2 0 31 68 106 1302.2 0 106 69 62 1302.2 0 62 70 93 1302.2 0 93 71 331 1302.2 0 331 72 4493 1302.2 0 4493 73 2756 1302.2 0 2756 74 880 1302.2 0 880 75 845 1302.2 0 845 76 3087 1302.2 0 3087 77 10997 1302.2 0 10997 78 5327 1302.2 0 5327 79 7084 1302.2 0 7084 80 11915 1302.2 0 11915 81 12598 1302.2 0 12598 82 8384 1302.2 0 8384 83 8177 1302.2 0 8177 84 17166 1302.2 0 17166 85 12392 1302.2 0 12392 86 9711 1302.2 0 9711 87 1988 1302.2 0 1988 88 1429 1302.2 0 1429 89 4399 1302.2 0 4399 90 4142 1302.2 0 4142 91 1432 1302.2 0 1432 92 1886 1302.2 0 1886 93 5827 1302.2 0 5827 94 8634 1302.2 0 8634 95 14670 1302.2 0 14670 96 6786 1302.2 0 6786 97 1635 1302.2 0 1635 98 1676 1302.2 0 1676 99 6935 1302.2 0 6935 100 10727 1302.2 0 10727 101 6303 1302.2 0 6303 102 2677 1302.2 0 2677 103 2253 1302.2 0 2253 104 862 1302.2 0 862 105 2476 1302.2 0 2476 106 7989 1302.2 0 7989 107 1608 1302.2 0 1608 108 567 1302.2 0 567 109 1722 1302.2 0 1722 110 4410 1302.2 0 4410 111 4343 1302.2 0 4343 112 4684 1302.2 0 4684 113 4034 1302.2 0 4034 114 3936 1302.2 0 3936 115 7441 1302.2 0 7441 116 4548 1302.2 0 4548 117 4150 1302.2 0 4150 118 9424 1302.2 0 9424 119 7394 1302.2 0 7394 120 5317 1302.2 0 5317 121 3592 1302.2 0 3592 122 3260 1302.2 0 3260 123 3625 1302.2 0 3625 124 4684 1302.2 0 4684 125 5398 1302.2 0 5398 126 6563 1302.2 0 6563 127 7163 1302.2 0 7163 128 3886 1302.2 0 3886 129 3005 1302.2 0 3005 130 5546 1302.2 0 5546 131 8369 1302.2 0 8369 132 6133 1302.2 0 6133 133 4076 1302.2 0 4076 134 4134 1302.2 0 4134 135 4520 1302.2 0 4520 136 6628 1302.2 0 6628 137 7393 1302.2 0 7393 138 5789 1302.2 0 5789 139 4994 1302.2 0 4994 140 4776 1302.2 0 4776 141 7098 1302.2 0 7098 142 3713 1302.2 0 3713 143 3228 1302.2 0 3228 144 4157 1302.2 0 4157 145 7316 1302.2 0 7316 146 5311 1302.2 0 5311 147 4017 1302.2 0 4017 148 4396 1302.2 0 4396 149 4624 1302.2 0 4624 150 3460 1302.2 0 3460 151 2836 1302.2 0 2836 152 4072 1302.2 0 4072 153 5724 1302.2 0 5724 154 6040 1302.2 0 6040 155 3037 1302.2 0 3037 156 3060 1302.2 0 3060 157 5287 1302.2 0 5287 158 4955 1302.2 0 4955 159 4307 1302.2 0 4307 160 3559 1302.2 0 3559 161 3013 1302.2 0 3013 162 3760 1302.2 0 3760 163 3662 1302.2 0 3662 164 3533 1302.2 0 3533 165 3892 1302.2 0 3892 166 3559 1302.2 0 3559 167 3238 1302.2 0 3238 168 3660 1302.2 0 3660 169 4997 1302.2 0 4997 170 4910 1302.2 0 4910 171 2472 1302.2 0 2472 172 2170 1302.2 0 2170 173 4933 1302.2 0 4933 174 6779 1302.2 0 6779 175 3472 1302.2 0 3472 176 2139 1302.2 0 2139 177 2027 1302.2 0 2027 178 2923 1302.2 0 2923 179 5194 1302.2 0 5194 180 5326 1302.2 0 5326 181 3854 1302.2 0 3854 182 6030 1302.2 0 6030 183 4786 1302.2 0 4786 184 6661 1302.2 0 6661 185 5259 1302.2 0 5259 186 5046 1302.2 0 5046 187 3842 1302.2 0 3842 188 2420 1302.2 0 2420 189 1926 1302.2 0 1926 190 3425 1302.2 0 3425 191 6326 1302.2 0 6326 192 5887 1302.2 0 5887 193 5597 1302.2 0 5597 194 4760 1302.2 0 4760 195 2472 1302.2 0 2472 196 1617 1302.2 0 1617 197 4225 1302.2 0 4225 198 12080 1302.2 0 12080 199 8589 1302.2 0 8589 200 2426 1302.2 0 2426 201 1257 1302.2 0 1257 202 2569 1302.2 0 2569 203 5878 1302.2 0 5878 204 5518 1302.2 0 5518 205 4880 1302.2 0 4880 206 5863 1302.2 0 5863 207 3194 1302.2 0 3194 208 2019 1302.2 0 2019 209 2748 1302.2 0 2748 210 4271 1302.2 0 4271 211 5505 1302.2 0 5505 212 3604 1302.2 0 3604 213 3491 1302.2 0 3491 214 3782 1302.2 0 3782 215 3333 1302.2 0 3333 216 2752 1302.2 0 2752 217 3593 1302.2 0 3593 218 4509 1302.2 0 4509 219 4791 1302.2 0 4791 220 3189 1302.2 0 3189 221 1578 1302.2 0 1578 222 2220 1302.2 0 2220 223 3876 1302.2 0 3876 224 3462 1302.2 0 3462 225 2531 1302.2 0 2531 226 2921 1302.2 0 2921 227 3821 1302.2 0 3821 228 3306 1302.2 0 3306 229 2965 1302.2 0 2965 230 3675 1302.2 0 3675 231 4105 1302.2 0 4105 232 2236 1302.2 0 2236 233 2443 1302.2 0 2443 234 5929 1302.2 0 5929 235 7270 1302.2 0 7270 236 4436 1302.2 0 4436 237 3464 1302.2 0 3464 238 4184 1302.2 0 4184 239 4507 1302.2 0 4507 240 3764 1302.2 0 3764 241 3147 1302.2 0 3147 242 3398 1302.2 0 3398 243 3670 1302.2 0 3670 244 2801 1302.2 0 2801 245 2482 1302.2 0 2482 246 3643 1302.2 0 3643 247 3889 1302.2 0 3889 248 4201 1302.2 0 4201 249 2793 1302.2 0 2793 250 1926 1302.2 0 1926 251 2114 1302.2 0 2114 252 3404 1302.2 0 3404 253 3427 1302.2 0 3427 254 2222 1302.2 0 2222 255 2236 1302.2 0 2236 256 2261 1302.2 0 2261 257 2925 1302.2 0 2925 258 2660 1302.2 0 2660 259 2700 1302.2 0 2700 260 3071 1302.2 0 3071 261 4237 1302.2 0 4237 262 2815 1302.2 0 2815 263 2251 1302.2 0 2251 264 2474 1302.2 0 2474 265 3092 1302.2 0 3092 266 3107 1302.2 0 3107 267 4699 1302.2 0 4699 268 3259 1302.2 0 3259 269 2287 1302.2 0 2287 270 2562 1302.2 0 2562 271 3598 1302.2 0 3598 272 3987 1302.2 0 3987 273 5302 1302.2 0 5302 274 4939 1302.2 0 4939 275 3235 1302.2 0 3235 276 2280 1302.2 0 2280 277 3258 1302.2 0 3258 278 4024 1302.2 0 4024 279 4350 1302.2 0 4350 280 3343 1302.2 0 3343 281 2431 1302.2 0 2431 282 2514 1302.2 0 2514 283 2216 1302.2 0 2216 284 2473 1302.2 0 2473 285 3395 1302.2 0 3395 286 3900 1302.2 0 3900 287 2714 1302.2 0 2714 288 4060 1302.2 0 4060 289 4540 1302.2 0 4540 290 4051 1302.2 0 4051 291 3522 1302.2 0 3522 292 4228 1302.2 0 4228 293 4659 1302.2 0 4659 294 3947 1302.2 0 3947 295 3358 1302.2 0 3358 296 3996 1302.2 0 3996 297 4477 1302.2 0 4477 298 2902 1302.2 0 2902 299 3247 1302.2 0 3247 300 9601 1302.2 0 9601 301 11129 1302.2 0 11129 Finished in 29.82 s (44 us/read; 1.36 M reads/minute). === Summary === Total reads processed: 675,958 Reads with adapters: 27,337 (4.0%) Reads that were too short: 249 (0.0%) Reads written (passing filters): 27,088 (4.0%) Total basepairs processed: 118,349,953 bp Total written (filtered): 7,349,323 bp (6.2%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 27337 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 2 0.0 3 0 0 0 0 2 18 12 0.0 3 0 0 6 3 3 19 304 0.0 3 0 278 7 9 10 20 26490 0.0 4 25734 612 93 38 13 21 79 0.0 4 14 56 2 2 5 22 14 0.0 4 1 0 7 2 4 23 11 0.0 4 0 0 0 6 5 24 47 0.0 4 38 7 0 0 2 25 1 0.0 4 0 0 0 0 1 26 3 0.0 4 0 0 0 0 3 27 2 0.0 4 0 0 0 0 2 28 2 0.0 4 0 0 0 0 2 30 2 0.0 4 0 0 0 0 2 31 1 0.0 4 0 0 0 0 1 32 1 0.0 4 0 0 0 0 1 33 3 0.0 4 0 0 0 0 3 34 2 0.0 4 0 0 0 0 2 35 1 0.0 4 0 0 0 0 1 36 2 0.0 4 0 0 0 0 2 37 1 0.0 4 0 0 0 0 1 38 1 0.0 4 0 0 0 0 1 39 3 0.0 4 0 0 0 0 3 40 3 0.0 4 0 0 0 0 3 41 1 0.0 4 0 0 0 0 1 42 1 0.0 4 0 0 0 0 1 43 4 0.0 4 0 0 0 0 4 44 1 0.0 4 0 0 0 0 1 45 5 0.0 4 0 0 0 0 5 46 3 0.0 4 0 0 0 0 3 47 3 0.0 4 0 0 0 0 3 48 3 0.0 4 0 0 0 0 3 49 5 0.0 4 0 0 0 0 5 50 2 0.0 4 0 0 0 0 2 51 2 0.0 4 0 0 0 0 2 52 1 0.0 4 0 0 0 0 1 53 1 0.0 4 0 0 0 0 1 54 4 0.0 4 0 0 0 0 4 55 10 0.0 4 0 0 0 0 10 56 1 0.0 4 0 0 0 0 1 57 6 0.0 4 0 0 0 0 6 58 2 0.0 4 0 0 0 0 2 59 4 0.0 4 0 0 0 0 4 60 2 0.0 4 0 0 0 0 2 61 2 0.0 4 0 0 0 0 2 63 1 0.0 4 0 0 0 0 1 64 6 0.0 4 0 0 0 0 6 65 2 0.0 4 0 0 0 0 2 66 2 0.0 4 0 0 0 1 1 67 4 0.0 4 0 0 0 0 4 68 2 0.0 4 0 0 0 0 2 71 3 0.0 4 0 0 0 1 2 72 4 0.0 4 0 0 0 0 4 74 4 0.0 4 0 0 0 0 4 75 2 0.0 4 0 0 0 0 2 76 2 0.0 4 0 0 0 0 2 77 5 0.0 4 0 0 0 0 5 78 14 0.0 4 0 0 0 0 14 79 3 0.0 4 0 0 0 0 3 80 3 0.0 4 0 0 0 0 3 81 10 0.0 4 0 0 0 0 10 82 2 0.0 4 0 0 0 0 2 83 3 0.0 4 0 0 0 0 3 84 3 0.0 4 0 0 0 1 2 85 1 0.0 4 0 0 0 0 1 86 3 0.0 4 0 0 0 0 3 87 1 0.0 4 0 0 0 0 1 88 2 0.0 4 0 0 0 0 2 90 2 0.0 4 0 0 0 0 2 91 3 0.0 4 0 0 0 0 3 92 7 0.0 4 0 0 0 1 6 95 3 0.0 4 0 0 0 0 3 96 2 0.0 4 0 0 0 0 2 97 1 0.0 4 0 0 0 0 1 98 2 0.0 4 0 0 0 0 2 99 1 0.0 4 0 0 0 0 1 100 3 0.0 4 0 0 0 0 3 101 6 0.0 4 0 0 0 0 6 102 4 0.0 4 0 0 0 0 4 103 1 0.0 4 0 0 0 0 1 104 3 0.0 4 0 0 0 0 3 105 2 0.0 4 0 0 0 0 2 106 1 0.0 4 0 0 0 0 1 107 1 0.0 4 0 0 0 0 1 109 4 0.0 4 0 0 0 0 4 110 3 0.0 4 0 0 0 0 3 111 3 0.0 4 0 0 0 0 3 112 2 0.0 4 0 0 0 0 2 114 3 0.0 4 0 0 0 0 3 115 3 0.0 4 0 0 0 0 3 116 1 0.0 4 0 0 0 0 1 117 4 0.0 4 0 0 0 0 4 119 1 0.0 4 0 0 0 0 1 121 3 0.0 4 0 0 0 1 2 122 3 0.0 4 0 0 0 0 3 123 1 0.0 4 0 0 0 0 1 124 3 0.0 4 0 0 0 0 3 125 2 0.0 4 0 0 0 0 2 126 3 0.0 4 0 0 0 0 3 127 10 0.0 4 0 0 0 0 10 128 1 0.0 4 0 0 0 0 1 129 1 0.0 4 0 0 0 0 1 130 1 0.0 4 0 0 0 0 1 132 1 0.0 4 0 0 0 0 1 133 3 0.0 4 0 0 0 0 3 134 1 0.0 4 0 0 0 0 1 135 4 0.0 4 0 0 0 0 4 136 2 0.0 4 0 0 0 0 2 137 2 0.0 4 0 0 0 0 2 138 4 0.0 4 0 0 0 0 4 139 1 0.0 4 0 0 0 0 1 141 1 0.0 4 0 0 0 0 1 142 4 0.0 4 0 0 0 0 4 144 3 0.0 4 0 0 0 0 3 145 5 0.0 4 0 0 0 0 5 146 2 0.0 4 0 0 0 0 2 147 1 0.0 4 0 0 0 0 1 149 1 0.0 4 0 0 0 0 1 150 1 0.0 4 0 0 0 0 1 151 1 0.0 4 0 0 0 0 1 152 4 0.0 4 0 0 0 0 4 153 1 0.0 4 0 0 0 0 1 154 1 0.0 4 0 0 0 1 155 2 0.0 4 0 0 0 0 2 156 2 0.0 4 0 0 0 0 2 157 2 0.0 4 0 0 0 0 2 158 2 0.0 4 0 0 0 0 2 159 1 0.0 4 0 0 0 0 1 160 1 0.0 4 0 0 0 0 1 161 4 0.0 4 0 0 0 0 4 162 2 0.0 4 0 0 0 1 1 165 2 0.0 4 0 0 0 0 2 167 1 0.0 4 0 0 0 0 1 168 1 0.0 4 0 0 0 0 1 169 2 0.0 4 0 0 0 0 2 171 2 0.0 4 0 0 0 0 2 172 1 0.0 4 0 0 0 0 1 173 2 0.0 4 0 0 0 0 2 174 2 0.0 4 0 0 0 1 1 176 1 0.0 4 0 0 0 0 1 177 1 0.0 4 0 0 0 0 1 178 3 0.0 4 0 0 0 0 3 179 2 0.0 4 0 0 0 0 2 180 1 0.0 4 0 0 0 0 1 181 1 0.0 4 0 0 0 0 1 182 1 0.0 4 0 0 0 0 1 184 1 0.0 4 0 0 0 0 1 185 2 0.0 4 0 0 0 0 2 186 1 0.0 4 0 0 0 0 1 191 1 0.0 4 0 0 0 0 1 192 2 0.0 4 0 0 0 0 2 194 1 0.0 4 0 0 0 0 1 197 2 0.0 4 0 0 0 0 2 198 2 0.0 4 0 0 0 0 2 201 1 0.0 4 0 0 0 0 1 202 1 0.0 4 0 0 0 0 1 204 2 0.0 4 0 0 0 0 2 206 1 0.0 4 0 0 0 0 1 207 1 0.0 4 0 0 0 0 1 208 1 0.0 4 0 0 0 0 1 209 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 1 215 1 0.0 4 0 0 0 0 1 216 1 0.0 4 0 0 0 0 1 217 1 0.0 4 0 0 0 0 1 221 1 0.0 4 0 0 0 0 1 282 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 1.16 s (43 us/read; 1.40 M reads/minute). === Summary === Total reads processed: 27,088 Reads with adapters: 2,003 (7.4%) Reads written (passing filters): 27,088 (100.0%) Total basepairs processed: 7,349,323 bp Total written (filtered): 7,296,434 bp (99.3%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 2003 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 5.3% C: 8.0% G: 84.4% T: 2.2% 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 4 1 105.8 0 1 9 530 0.1 0 48 482 10 467 0.0 1 19 448 11 861 0.0 1 2 859 12 3 0.0 1 0 3 13 1 0.0 1 0 1 150 1 0.0 1 1 208 4 0.0 1 4 215 33 0.0 1 27 6 216 1 0.0 1 1 217 1 0.0 1 1 218 1 0.0 1 1 220 1 0.0 1 1 223 1 0.0 1 1 242 7 0.0 1 7 256 75 0.0 1 72 3 257 12 0.0 1 12 258 1 0.0 1 1 259 2 0.0 1 2 WARNING: One or more of your adapter sequences may be incomplete. Please see the detailed output above.