Additional File 1: Discrepancies Occurring Between the Current and Brown Et Al. Whole

Additional file 1: Discrepancies occurring between the current and Brown et al. whole genome sequencing of C. autoethanogenum

Position Mutation Gene / region Homopolymer length Amino acid length Sequence identity CLAU CLJU CLAU BRO BRO CAUT CLJU 1 -A → CAETHG_0001 1 1 - - - - - 3259 A CAETHG_0005 6 6 409 299 293/293 407/408 407/408 29841 T CAETHG_0036 5 5 392 368 364/364 NF 392/392 44272 T CAETHG_0050 7 7 359 323 315/315 NF 358/359 CAETHG_0050 ← / → 45316 G CAETHG_0051 6 6 - - - - - 46129 T CAETHG_0051 6 6 412 412 119/367 NF 412/412 47240 T CAETHG_0053 6 6 412 116 119/367 NF 412/412 CAETHG_0070 → / → 66496 T CAETHG_0071 8 8 - - - - - 117478 A CAETHG_0113 7 7 1164 778 776/776 NF 1147/1164 124794 A CAETHG_0119 7 7 638 447 428/428 NF 638/638 CAETHG_0121 → / → 127144 A CAETHG_0122 7 7 - - - - - CAETHG_0121 → / → 127389 A CAETHG_0122 7 7 - - - - - CAETHG_0121 → / → 127400 A CAETHG_0122 7 7 - - - - - CAETHG_0121 → / → 127486 T CAETHG_0122 5 5 - - - - - 159945 G CAETHG_0150 5 5 208 206 206/206 NF 208/208 161225 A CAETHG_0152 8 8 265 41 216/216 NF 265/265 CAETHG_0155 → / ← 163952 T CAETHG_0156 7 7 - - - - - CAETHG_0156 ← / ← 165377 T CAETHG_0157 8 8 - - - - - 140/140 + 165391 T CAETHG_0157 5 5 617 141 464/464 617/617 590/617 168124 G CAETHG_0159 5 5 211 184 174/174 NF 211/211 CAETHG_0163 ← / → 172464 G CAETHG_0164 2 2 - - - - - 174241 T CAETHG_0165 6 6 618 483 478/483 NF 618/618 CAETHG_0172 → / → 182488 T CAETHG_0173 4 4 - - - - - CAETHG_0183 ← / ← 190962 G CAETHG_0184 4 4 - - - - - CAETHG_0227 ← / → 238048 A CAETHG_0228 7 7 - - - - - 251180 A CAETHG_0235 8 8 1010 603 597/597 NF 1010/1010 CAETHG_0260 ← / ← 280934 C CAETHG_0261 6 6 - - - - - 282548 C CAETHG_0262 5 5 289 268 261/261 NF 289/289 283331 C CAETHG_0263 5 5 370 370 NF 370/370 369/370 287229 T CAETHG_0269 8 8 302 202 192/194 NF 249/249 314151 C CAETHG_0298 4 4 570 555 553/553 570/570 569/570 CAETHG_0319 → / ← 338255 G CAETHG_0320 5 5 - - - - - 342673 A CAETHG_0326 7 7 247 143 143/143 NF 247/247 348516 T CAETHG_0332 6 6 312 201 193/201 NF 312/312 389079 C CAETHG_0363 5 5 402 402 NF 402/402 398/402 423998 T CAETHG_0392 6 6 1046 277 NF NF 1046/1046 CAETHG_0425 ← / ← 465361 C CAETHG_0426 4 4 - - - - - 475299 C CAETHG_0435 4 4 407 370 363/363 407/407 400/407 479940 A CAETHG_0439 7 7 430 105 101/104 430/430 425/430 CAETHG_0442 ← / ← 482992 A CAETHG_0443 6 6 - - - - - CAETHG_0463 ← / ← 514320 C CAETHG_0464 7 7 - - - - - 547091 T CAETHG_0490 6 6 339 281 266/269 NF 339/339 200/203 + 552005 T CAETHG_0494 7 7 511 205 306/307 511/511 431/431 CAETHG_0499 ← / ← 559107 T CAETHG_0500 5 5 - - - - - CAETHG_0519 → / ← 576961 A CAETHG_0520 2 2 - - - - - 613244 A CAETHG_0554 7 7 632 641 626/631 NF 632/632 CAETHG_0557 ← / ← 617697 C CAETHG_0558 6 6 - - - - - 627984 C CAETHG_0567 2 2 521 245 231/233 NF 521/521 656810 T CAETHG_0595 6 6 722 279 269/269 722/722 717/722 693187 T CAETHG_0632 8 8 125 42 35/42 NF 125/125 755993 T CAETHG_0689 8 8 378 238 230/233 378/378 NF 757677 T CAETHG_0691 6 6 891 572 563/563 NF NF 776817 C CAETHG_0714 6 6 313 196 182/182 NF 313/313 786900 A CAETHG_0728 8 8 370 358 357/357 370/370 370/370 CAETHG_0734 ← / → 793985 T CAETHG_0735 5 5 - - - - - 826486 T CAETHG_0764 7 7 373 280 NF 372/373 368/373 CAETHG_0764, 826929 A CAETHG_0766 8 8 373 278^ + 107 105/107 361/362 367/373 846450 T CAETHG_0790 5 5 386 121 109/110 NF 386/386 859894 G CAETHG_0803 6 6 228 553 223/224 NF 228/228 866415 C CAETHG_0808 6 6 431 300 297/298 NF 431/431 902073 T CAETHG_0837 7 7 237 75 75/75 236/237 236/237 919361 A CAETHG_0852 7 7 505 413 401/402 NF 505/505 928129 C CAETHG_0862 5 5 293 250 249/249 NF 293/293 82/82 + 945907 T CAETHG_0877 7 7 442 82 342/343 NF 442/442 CAETHG_0878 ← / ← 947320 T CAETHG_0879 8 8 - - - - - CAETHG_0898 ← / ← 967462 A CAETHG_0899 7 7 - - - - - 985484 C CAETHG_0915 4 4 688 688 NF NF 688/688 992036 C CAETHG_0922 6 6 266 208 204/204 NF 266/266 103182 2 T CAETHG_0963 7 7 192 99 94/94 192/192 192/192 103857 2 G CAETHG_0970 5 5 460 104 97/107 458/458 459/460 108075 0 A CAETHG_1007 7 7 460 308 307/307 460/460 456/460 109825 CAETHG_1021 ← / ← 1 T CAETHG_1022 7 7 - - - - - 109983 1 T CAETHG_1024 8 8 222 152 146/146 222/222 NF 110617 6 A CAETHG_1030 6 6 172 126 109/109 NF 172/172 112461 CAETHG_1042 ← / → 4 T CAETHG_1043 7 NF - - - - - 114147 3 T CAETHG_1056 6 6 224 204 204/204 NF 224/224 114744 6 T CAETHG_1062 6 6 571 373 372/372 571/571 569/571 114863 CAETHG_1062 ← / ← 3 T CAETHG_1063 7 7 - - - - - 117767 CAETHG_1086 ← / ← 1 T CAETHG_1087 6 6 - - - - - 118444 9 T CAETHG_1096 6 6 301 136 131/130 301/301 NF 125027 CAETHG_1165 → / → 0 A CAETHG_1166 8 8 - - - - - 126950 CAETHG_1186 ← / → 9 A CAETHG_1187 7 7 - - - - - 130457 CAETHG_1218 → / ← 7 G CAETHG_1219 6 6 - - - - - 130705 0 T CAETHG_1221 6 6 327 360 319/319 NF 327/327 132951 CAETHG_1246 ← / → 9 C CAETHG_1247 6 6 - - - - - 135941 5 C CAETHG_1270 6 6 172 182 171/172 NF 172/172 136493 6 T CAETHG_1277 8 8 108 110 106/107 NF 107/108 140841 0 T CAETHG_1317 2 2 612 540 540/540 NF 612/612 142143 0 G CAETHG_1330 5 5 407 299 292/299 NF 407/407 144622 CAETHG_1349 ← / → 3 T CAETHG_1350 5 5 - - - - - 145700 2 C CAETHG_1363 6 6 296 254 249/249 294/295 292/296 148649 CAETHG_1391 ← / ← 6 T CAETHG_1392 8 8 - - - - - 151241 CAETHG_1413 → / → 9 G CAETHG_1414 5 5 - - - - - 151806 CAETHG_1420 ← / ← 3 C CAETHG_1421 4 4 - - - - - 151867 8 C CAETHG_1421 6 6 106 279 105/105 106/106 105/106 151911 CAETHG_1421 ← / → 6 A CAETHG_1422 10 10 - - - - - 156430 CAETHG_1461 ← / ← 6 C CAETHG_1462 5 5 - - - - - 160044 5 T CAETHG_1498 7 7 413 422 407/410 NF 413/413 160390 T CAETHG_1501 8 8 401 401 NF NF 401/401 0 160946 3 T CAETHG_1508 7 7 251 247 242/242 250/250 251/251 162024 6 T CAETHG_1521 6 NF 323 316 315/315 323/323 310/323 162797 CAETHG_1529 ← / → 7 T CAETHG_1530 6 NF - - - - - 162845 9 A CAETHG_1530 4 4 570 78 NF 570/570 567/570 172476 CACCCC 7 C CAETHG_1601 6 280 280 NF 280/280 271/280 179495 CAETHG_1672 ← / → 8 G CAETHG_1673 5 5 - - - - - 180115 CAETHG_1679 ← / → 3 T CAETHG_1680 7 7 - - - - - 181881 6 C CAETHG_1690 5 5 400 241 241/241 400/400 398/400 184064 CAETHG_1706 → / → 3 G CAETHG_1707 5 5 - - - - - 184188 CAETHG_1708 → / → 8 T CAETHG_1709 2 2 - - - - - 184297 2 A CAETHG_1710 6 6 537 96 90/95 537/537 NF 185439 2 T CAETHG_1719 6 6 748 748* NF 735/735 726/745 185500 4 T CAETHG_1721 7 7 127 140 125/126 127/127 126/127 190461 CAETHG_1767 ← / ← 7 C CAETHG_1768 5 5 - - - - - 190919 5 G CAETHG_1772 4 4 214 63 61/63 NF 214/214 197982 2 C CAETHG_1841 5 5 397 405 392/394 NF 388/388 198342 7 T CAETHG_1846 7 7 663 405 404/405 NF 663/663 199302 CAETHG_1856 ← / ← 8 C CAETHG_1857 5 5 - - - - - 206616 6 T CAETHG_1922 7 7 132 103 NF NF 132/132 209930 CAETHG_1967 ← / ← 0 C CAETHG_1968 4 4 - - - - - 213491 CAETHG_1990 ← / ← 8 T CAETHG_R0038 9 9 - - - - - 214700 CAETHG_2001 ← / ← 4 C CAETHG_2002 8 8 - - - - - 215426 CAETHG_2008 ← / ← 9 T CAETHG_2009 6 6 - - - - - 216206 4 G CAETHG_2018 4 4 310 274 269/269 NF 310/310 217047 CAETHG_2024 → / ← 8 G CAETHG_2025 4 4 - - - - - 217447 57/67 + 5 A CAETHG_2030 7 7 166 67 102/102 NF 166/166 218013 CAETHG_2036 → / → 2 G CAETHG_2037 5 5 - - - - - 219023 186/186 + 1 C CAETHG_2048 6 6 312 190 110/110 NF 312/312 222201 9 T CAETHG_2078 8 8 445 326 325/325 NF 444/445 223873 CAETHG_R0029 ← / → 3 A CAETHG_2094 8 8 - - - - - 224648 3 T CAETHG_2100 8 8 328 327* NF NF 328/328 226646 7 A CAETHG_2127 8 8 366 348 347/347 NF 366/366 227754 CAETHG_2131 → / → 4 A CAETHG_2132 8 8 - - - - - 228198 9 A CAETHG_2134 8 8 463 462* NF NF 463/463 231396 2 T CAETHG_2170 2 2 250 231 219/220 NF 250/250 233819 9 C CAETHG_2193 6 6 247 249 242/246 NF 247/247 235296 CAETHG_2212, 9 T CAETHG_2213 2 2 416 202 + 641 198/200 416/416 414/416 238424 189/190 + 8 G CAETHG_2231 6 6 361 191 142/142 NF 361/361 242310 CAETHG_2266 → / → 1 G CAETHG_2267 6 6 - - - - - 243509 55/57 + 1 A CAETHG_2280 6 6 434 59 374/374 NF 433/434 244303 C CAETHG_2289 → / ← 6 6 - - - - - 6 CAETHG_2290 245924 CAETHG_2299 → / → 2 T CAETHG_2300 7 7 - - - - - 246346 CAETHG_2302 ← / → 9 A CAETHG_2303 5 5 - - - - - 246395 127/127 + 8 A CAETHG_2303 6 6 335 128 207/207 NF 334/335 246496 CAETHG_2305 → / → 1 C CAETHG_2306 1 1 - - - - - 246545 159/159 + 6 A CAETHG_2306 5 5 255 168 45/45 NF 254/255 250595 5 A CAETHG_2347 6 6 504 484 478/480 NF 504/504 251128 CAETHG_2352 → / → 0 T CAETHG_2353 7 7 - - - - - 252086 248/253 + 5 T CAETHG_2360 3 3 340 256 66/67 NF 340/340 253501 185/187 + 2 T CAETHG_2371 7 7 612 189 407/407 611/612 599/612 253824 CAETHG_2375 ← / → 5 A CAETHG_2376 7 7 - - - - - 254959 CAETHG_2385 → / ← 3 A CAETHG_2386 6 NF - - - - - 255859 48/49 + 1 A CAETHG_2394 8 NF 399 49 336/337 399/399 NF 256295 100/100 + 4 A CAETHG_2399 3 NF 574 132 444/444 574/574 NF 259683 5 G CAETHG_2429 7 7 400 382 377/378 NF 399/400 259715 CAETHG_2429 → / → 8 G CAETHG_2430 7 7 - - - - - 261154 52/53 + 0 A CAETHG_2440 7 7 585 60 522/522 NF 585/585 263345 0 G CAETHG_2459 4 4 1018 1017* NF 649/650 + 367/367 960/1018 266646 CAETHG_2486 → / → 9 A CAETHG_2487 6 6 - - - - - 267118 CAETHG_2492 → / → 2 G CAETHG_2493 5 5 - - - - - 268308 7 C CAETHG_2503 4 4 640 615 601/605 640/640 639/640 268910 CAETHG_2507 ← / → 5 A CAETHG_2508 8 8 - - - - - 268994 234/235 + 0 A CAETHG_2508 6 6 349 235 98/99 349/349 344/349 276644 CAETHG_2569 → / → 0 A CAETHG_2570 7 7 - - - - - 277960 CAETHG_2576 → / ← 8 G CAETHG_2577 5 5 - - - - - 280442 310/314 + 3 T CAETHG_2599 8 8 372 318 56/57 372/372 368/372 280502 CAETHG_2601, 138/138 + 3 A CAETHG_2602 7 AAAGAAA 370 141 + 244 234/234 370/370 328/366 281586 CAETHG_2612, 66/69 + 8 A CAETHG_2613 6 NF 376 71 + 313 311/313 376/376 NF 282372 6 C CAETHG_2620 5 5 513 512* NF 361/361 + 89/90 508/513 282708 46/50 + 9 A CAETHG_2624 8 8 371 59 247/247 371/371 370/371 282731 CAETHG_2624 → / → 4 A CAETHG_2625 8 8 - - - - - 284080 186/186 + 8 G CAETHG_2636 5 5 455 202 260/260 NF 455/455 285281 314/314 + 2 T CAETHG_2647 8 NF 470 314 123/124 470/470 NF 287434 CAETHG_2664, 593/601 + 2 T CAETHG_2665 2 2 781 602 + 192 11/192 NF 781/781 289433 345/345 + 4 G CAETHG_2686 5 5 1111 351 686/687 586/586 1100/1111 289810 CAETHG_2688 ← / ← 8 C CAETHG_2689 5 5 - - - - - 290924 CAETHG_2700 → / → 0 G CAETHG_2701 5 5 - - - - - 292377 89/89 + 1 A CAETHG_2715 7 7 420 90 269/269 420/420 418/420 294034 CAETHG_R0076 → / → 4 A CAETHG_2723 7 7 - - - - - 294365 CAETHG_2725 → / → 9 G CAETHG_2726 5 5 - - - - - 294898 CAETHG_2732 → / → 4 T CAETHG_2733 7 7 - - - - - 297713 A CAETHG_2751 8 8 453 460 448/453 NF 453/453 7 298874 55/57 + 5 G CAETHG_2760 4 4 401 62 333/334 NF 401/401 299654 CAETHG_2768 → / → 8 A CAETHG_2769 6 6 - - - - - 304283 452/453 + 4 A CAETHG_2803 7 7 613 457 124/125 NF 613/613 304505 CAETHG_2806 → / → 1 G CAETHG_2807 5 5 - - - - - 304888 CAETHG_2810 → / → 7 G CAETHG_2811 5 5 - - - - - 307680 480/483 + 4 A CAETHG_2840 8 8 635 487 147/147 NF 635/635 309754 CAETHG_2860 → / → 5 A CAETHG_2861 7 7 - - - - - 311409 0 T CAETHG_2873 8 8 308 307* NF 308/308 307/308 313853 180/180 + 1 A CAETHG_2894 8 8 251 180 54/55 NF 251/251 314822 3 A CAETHG_2906 7 7 257 227 222/226 NF 256/257 315459 5 G CAETHG_2911 6 6 396 364 359/361 396/396 394/396 315819 CAETHG_2915 ← / → 7 T CAETHG_2916 8 8 - - - - - 315822 CAETHG_2915 ← / → 0 T CAETHG_2916 5 5 - - - - - 316018 CAETHG_2916 → / → 0 A CAETHG_2917 7 7 - - - - - 316118 4 A CAETHG_2917 6 6 361 319 318/319 354/354 354/354 320151 3 A CAETHG_2958 9 9 107 146 106/106 NF 107/107 322006 8 T CAETHG_2973 8 8 250 249* NF 250/250 249/250 323885 CAETHG_2988 → / → 8 G CAETHG_2989 5 5 - - - - - 326581 CAETHG_3010 → / → 7 G CAETHG_3011 6 6 - - - - - 328392 203/204 + 8 G CAETHG_3023 5 5 487 206 274/274 475/476 486/487 331354 CAETHG_3050 → / → 2 G CAETHG_3051 6 6 - - - - - 337628 CAETHG_3108 → / → 6 G CAETHG_3109 7 7 - - - - - 339698 CAETHG_3132, 6 G CAETHG_3133 5 5 160 152 + 80 149/149 NF 160/160 341003 CAETHG_3142 ← / → 0 A CAETHG_3143 8 8 - - - - - 346773 85/87 + 8 G CAETHG_3210 4 4 368 97 275/276 NF 368/368 346879 6 G CAETHG_3212 5 5 271 291 270/271 NF 270/271 346896 4 C → A CAETHG_3212 2 1 271 291 270/271 NF 270/271 347744 CAETHG_3223 ← / → 2 A CAETHG_3224 2 2 - - - - - 350501 CAETHG_3250 → / → 8 T CAETHG_3251 6 6 - - - - - 356261 5 A CAETHG_3308 8 8 233 220 218/219 NF 232/233 358547 CAETHG_3330 → / → 7 C CAETHG_3331 4 4 - - - - - 361006 126/127 + 1 T CAETHG_3356 9 9 388 127 232/232 NF 387/388 363054 CAETHG_3380 ← / ← 3 A CAETHG_3381 7 7 - - - - - 367304 62/63 + 0 A CAETHG_3421 7 7 310 67 183/184 309/310 307/310 372408 CAETHG_3470 ← / → 4 T CAETHG_3471 8 8 - - - - - 374120 9 T CAETHG_3490 7 7 405 337 334/334 NF 405/405 375259 413/415 + 2 G CAETHG_3500 5 5 459 418 41/41 NF 459/459 376758 CAETHG_3514 → / → 6 A CAETHG_3515 6 6 - - - - - 378395 404/405 + 9 T CAETHG_3526 5 NF 568 405 156/157 568/568 NF 378670 64/64 + 9 T CAETHG_3531 6 NF 144 64 79/80 144/144 NF 378789 T CAETHG_3534 3 NF 348 230 229/229 + 348/348 NF 5 106/106 381186 4 G CAETHG_3558 5 NF 103 112 91/93 103/103 NF 382744 81/95 + 1 T CAETHG_3567 3 3 231 98 133/134 NF 230/231 384820 CAETHG_3579 ← / → 0 A CAETHG_3580 4 NF - - - - - 387793 69/69 + 7 A CAETHG_3599 3 3 270 74 181/182 270/270 269/270 387856 CAETHG_3600 → / → 7 A CAETHG_3601 7 7 - - - - - 399474 172/177 + 9 G CAETHG_3707 6 6 261 176 67/67 NF 261/261 400446 0 G CAETHG_3715 5 5 113 108^ 108/108 NF 113/113 402543 0 A CAETHG_3740 7 7 360 359* NF 360/360 356/360 403001 CAETHG_3746 ← / → 7 A CAETHG_3747 7 7 - - - - - 404464 1 A CAETHG_3758 7 NF 174 175 172/172 174/174 NF 404608 CAETHG_3761 ← / → 7 G CAETHG_3762 6 NF - - - - - 405312 CAETHG_3767 → / → 4 A CAETHG_3768 13 NF - - - - - 418014 94/95 + 2 T CAETHG_3902 5 5 359 99 245/246 NF 359/359 418090 245/246 + 5 G CAETHG_3903 5 5 359 251 94/95 NF 359/359 418449 0 A CAETHG_3905 7 7 767 760 758/767 NF 767/767 418989 CAETHG_3911 ← / → 2 T CAETHG_3912 7 7 - - - - - 420733 CAETHG_3925 → / → 2 T CAETHG_3926 6 6 - - - - - 423182 CAETHG_3949 → / → 4 A CAETHG_3950 8 NF - - - - - 426991 156/156 + 1 C CAETHG_3986 4 NF 549 170 383/383 453/454 NF 428709 CAETHG_4002 → / → 9 G CAETHG_4003 6 NF - - - - - 430421 CAETHG_4019 ← / → 6 T CAETHG_4020 8 8 - - - - -