Table 2. Chromosome-wide alignment.
| Chromosome | Total bp | Total aligned | % of M. graminicola genome not aligned | % of non-repetitive DNA not aligned | Total genes | Aligned genes (% of total M. graminicola genes) | Aligned codons |
| Essential | |||||||
| 1 | 6119516 | 5099307 | 17 | 8 | 1981 | 1892 (96%) | 793073 |
| 2 | 3877257 | 2927990 | 24 | 10 | 1136 | 1080 (95%) | 460451 |
| 3 | 3521896 | 2782108 | 21 | 9 | 1071 | 975 (91%) | 431247 |
| 4 | 2892740 | 2193557 | 24 | 10 | 821 | 728 (89%) | 325481 |
| 5 | 2873973 | 2084833 | 27 | 11 | 778 | 688 (88%) | 305799 |
| 6 | 2686295 | 1839353 | 32 | 12 | 692 | 631 (91%) | 281065 |
| 7 | 2676027 | 1726677 | 35 | 25 | 766 | 577 (75%) | 227916 |
| 8 | 2453492 | 1805622 | 26 | 9 | 689 | 622 (90%) | 259319 |
| 9 | 2151231 | 1487710 | 31 | 13 | 604 | 520 (86%) | 227199 |
| 10 | 1689705 | 1235803 | 27 | 15 | 516 | 459 (89%) | 208847 |
| 11 | 1632476 | 1259536 | 23 | 14 | 488 | 422 (86%) | 188990 |
| 12 | 1470463 | 1102283 | 25 | 12 | 408 | 359 (88%) | 143622 |
| 13 | 1191065 | 831252 | 30 | 14 | 330 | 278 (84%) | 106710 |
| Dispensable | |||||||
| 14 | 774137 | 201550 | 74 | 59 | 114 | 25 (22%) | 3909 |
| 15 | 641641 | 259126 | 60 | 39 | 86 | 42 (49%) | 8679 |
| 16 | 609134 | 256062 | 58 | 46 | 88 | 50 (57%) | 9567 |
| 17 | 586944 | 343425 | 41 | 20 | 78 | 44 (56%) | 11393 |
| 18 | 574302 | 129688 | 77 | 64 | 64 | - | - |
| 19 | 551115 | 183800 | 67 | 57 | 87 | 29 (33%) | 3790 |
| 20 | 474406 | 279705 | 41 | 24 | 79 | 49 (62%) | 10699 |
| 21 | 410414 | 183792 | 55 | 36 | 58 | 39 (67%) | 7784 |
Total length of Mycosphaerella graminicola chromosomes and total length of aligned sequence. Total number of annotated genes on M. graminicola chromosomes and genes aligned by the S1 sequence. Chromosomes were characterized as dispensable or non-dispensable (essential) as in [8].