| Marssonina brunnea f sp multigermtubi mb m1 | Marssonina brunnea f. sp. 'multigermtubi' MB_m1 | 10027 | 10027 | 0 | 0 |
| Melampsora laricipopulina | Melampsora larici-populina | 16372 | 16387 | 0 | 0 |
| Metarhizium acridum cqma 102 | Metarhizium acridum CQMa 102 | 9849 | 9854 | 0 | 0 |
| Metarhizium album arsef 1941 | Metarhizium album ARSEF 1941 | 8472 | 8472 | 0 | 0 |
| Metarhizium anisopliae | Metarhizium anisopliae | 10795 | 10795 | 0 | 0 |
| Metarhizium anisopliae arsef 23 | Metarhizium anisopliae ARSEF 23 | 11688 | 11688 | 0 | 0 |
| Metarhizium anisopliae arsef 549 | Metarhizium anisopliae ARSEF 549 | 10891 | 10891 | 0 | 0 |
| Metarhizium anisopliae brip 53284 | Metarhizium anisopliae BRIP 53284 | 11456 | 11456 | 0 | 0 |
| Metarhizium anisopliae brip 53293 | Metarhizium anisopliae BRIP 53293 | 11415 | 11415 | 0 | 0 |
| Metarhizium brunneum arsef 3297 | Metarhizium brunneum ARSEF 3297 | 10689 | 10689 | 0 | 0 |
| Metarhizium guizhouense arsef 977 | Metarhizium guizhouense ARSEF 977 | 11787 | 11787 | 0 | 0 |
| Metarhizium majus arsef 297 | Metarhizium majus ARSEF 297 | 11535 | 11535 | 0 | 0 |
| Metarhizium rileyi rcef 4871 | Metarhizium rileyi | 8764 | 8764 | 0 | 0 |
| Metarhizium robertsii | Metarhizium robertsii | 12384 | 12384 | 0 | 0 |
| Metschnikowia bicuspidata var bicuspidata nrrl yb 4993 | Metschnikowia bicuspidata | 5838 | 5842 | 2051 | 2037 |
| Meyerozyma guilliermondii atcc 6260 | Meyerozyma guilliermondii ATCC 6260 | 5920 | 5926 | 0 | 0 |
| Microbotryum violaceum | Microbotryum violaceum | 7819 | 7829 | 0 | 0 |
| Microdochium bolleyi | Microdochium bolleyi | 13165 | 13167 | 7904 | 8124 |
| Microsporum gypseum cbs 118893 | Microsporum gypseum CBS 118893 | 8921 | 8921 | 87 | 58 |
| Millerozyma farinosa cbs 7064 | Millerozyma farinosa CBS 7064 | 11175 | 11175 | 0 | 0 |
| Mitosporidium daphniae | Mitosporidium daphniae | 3330 | 3330 | 76 | 0 |
| Mixia osmundae iam 14324 | Mixia osmundae IAM 14324 | 6726 | 6726 | 57 | 0 |
| Mixia osmundae iam 14324 gca 000708205 | Mixia osmundae IAM 14324 (GCA_000708205) | 6858 | 6858 | 2602 | 2549 |
| Moesziomyces antarcticus | Moesziomyces antarcticus | 4675 | 4675 | 15 | 0 |
| Moesziomyces aphidis dsm 70725 | Moesziomyces aphidis | 6011 | 6011 | 0 | 0 |
| Moniliophthora perniciosa fa553 | Moniliophthora perniciosa FA553 | 13559 | 13560 | 3253 | 0 |
| Moniliophthora roreri | Moniliophthora roreri | 20131 | 20131 | 117 | 0 |
| Moniliophthora roreri mca 2997 | Moniliophthora roreri MCA 2997 | 17910 | 17910 | 231 | 0 |
| Mortierella elongata ag 77 | Mortierella elongata | 14961 | 14963 | 8159 | 8161 |
| Mortierella verticillata nrrl 6337 | Mortierella verticillata NRRL 6337 | 1523 | 1524 | 703 | 816 |
| Mucor ambiguus | Mucor ambiguus | 11343 | 11343 | 0 | 0 |
| Mucor circinelloides f lusitanicus cbs 277 49 | Mucor circinelloides | 11709 | 11710 | 2186 | 2499 |
| Mucor circinelloides f circinelloides 1006phl | Mucor circinelloides f. circinelloides 1006PhL | 12227 | 12229 | 165 | 156 |
| Myceliophthora thermophila atcc 42464 | Myceliophthora thermophila ATCC 42464 | 9097 | 9100 | 6691 | 6776 |
| Mycosphaerella eumusae | Mycosphaerella eumusae | 12632 | 12632 | 4886 | 5087 |
| Nadsonia fulvescens var elongata dsm 6958 | Nadsonia fulvescens | 5649 | 5650 | 2597 | 2471 |
| Naumovozyma castellii cbs 4309 | Naumovozyma castellii CBS 4309 | 5592 | 5592 | 0 | 0 |
| Naumovozyma dairenensis cbs 421 | Naumovozyma dairenensis CBS 421 | 5548 | 5548 | 0 | 0 |
| Nematocida parisii ertm1 | Nematocida parisii ERTm1 | 2661 | 2661 | 265 | 1532 |
| Nematocida parisii ertm3 | Nematocida parisii ERTm3 | 2726 | 2726 | 1013 | 1602 |
| Nematocida sp ertm5 | Nematocida sp | 2709 | 2709 | 0 | 0 |
| Nematocida sp 1 ertm2 | Nematocida sp. 1 ERTm2 | 2770 | 2770 | 25 | 30 |
| Nematocida sp 1 ertm6 | Nematocida sp. 1 ERTm6 | 2433 | 2433 | 5 | 0 |
| Neofusicoccum parvum ucrnp2 | Neofusicoccum parvum UCRNP2 | 10366 | 10366 | 0 | 0 |
| Neolentinus lepideus hhb14362 ss 1 | Neolentinus lepideus | 13157 | 13170 | 7087 | 7019 |
| Neonectria ditissima | Neonectria ditissima | 12685 | 12711 | 45 | 0 |
| Neosartorya fischeri | Neosartorya fischeri | 10402 | 10437 | 1 | 1 |
| Neurospora crassa | Neurospora crassa | 10813 | 10829 | 0 | 0 |
| Neurospora crassa gca 000786625 | Neurospora crassa (GCA_000786625) | 11653 | 11661 | 0 | 0 |
| Neurospora tetrasperma fgsc 2508 | Neurospora tetrasperma FGSC 2508 | 10380 | 10380 | 3717 | 5632 |