Table 1.
Top 30 discovered motifs in the promoter regions as ranked by MCS scores
| ID | Top Motifs | Genome wide statistics for the aligned region | Functional category enrichment* | ||||||
|---|---|---|---|---|---|---|---|---|---|
| N | k | C.R. | MCS | Most enriched functional category | Genes in functional category | Motif genes in Fun- Group | Enrichment Score | ||
| M1 | CCCCnC | 4734 | 1462 | 0.30 | 93.5 | Nucleolus 1 | 128 | 75 | 11.9 |
| M2 | CACGTG | 623 | 315 | 0.50 | 66.4 | Ribosome 2 | 88 | 47 | 24.3 |
| M3 | CGTCAY | 1970 | 468 | 0.23 | 41.6 | Ribosome 2 | 88 | 53 | 5.0 |
| M4 | CGCGnC | 2195 | 461 | 0.21 | 40.6 | Nucleus 2 | 341 | 173 | 9.6 |
| M5 | CGCCnC | 3007 | 525 | 0.17 | 37.2 | - | - | - | - |
| M6 | CCCCnG | 2985 | 509 | 0.17 | 36.0 | - | - | - | - |
| M7 | CCnCCA | 5444 | 767 | 0.14 | 35.4 | Nucleus 2 | 341 | 178 | 7.9 |
| M8 | CTCCnC | 4829 | 673 | 0.13 | 35.2 | Peroxisome 2 | 32 | 24 | 5.4 |
| M9 | CnCCGMC | 1857 | 357 | 0.19 | 33.8 | Nucleolus 1 | 128 | 43 | 12.2 |
| M10 | CnCnCCC | 4201 | 565 | 0.13 | 31.8 | Nucleus 3 | 159 | 110 | 6.2 |
| M11 | CCAATnA | 1105 | 212 | 0.19 | 30.6 | - | - | - | - |
| M12 | GCnnCGC | 2624 | 385 | 0.14 | 29.3 | Cytoskeleton 1 | 22 | 15 | 5.3 |
| M13 | ACGYSAC | 797 | 173 | 0.21 | 27.9 | Nucleus 2 | 341 | 150 | 6.7 |
| M14 | CCSGCC | 1520 | 258 | 0.16 | 26.5 | - | - | - | - |
| M15 | CnGCnCC | 3170 | 421 | 0.13 | 26.0 | - | - | - | - |
| M16 | CnTCnCC | 5870 | 636 | 0.10 | 26.0 | - | - | - | - |
| M17 | ACCCCG | 761 | 152 | 0.19 | 25.9 | - | - | - | - |
| M18 | CGGnCCG | 369 | 93 | 0.25 | 25.2 | - | - | - | - |
| M19 | AAAAA | 6137 | 668 | 0.10 | 24.5 | Nucleolus 1 | 128 | 113 | 19.0 |
| M20 | CCnCnTC | 5505 | 545 | 0.09 | 24.4 | - | - | - | - |
| M21 | AAAWTTY | 853 | 169 | 0.19 | 23.7 | Nucleolus 1 | 128 | 101 | 31.4 |
| M22 | TGCCCC | 777 | 139 | 0.17 | 22.9 | Nucleus 2 | 341 | 98 | 5.4 |
| M23 | GnGGCT | 2449 | 321 | 0.13 | 21.5 | - | - | - | - |
| M24 | GCGCnC | 1673 | 239 | 0.14 | 21.2 | Nucleus 2 | 341 | 196 | 6.4 |
| M25 | TCCCnC | 4141 | 432 | 0.10 | 20.8 | - | - | - | - |
| M26 | YGATAAG | 393 | 85 | 0.21 | 20.2 | Nucleolus 1 | 128 | 38 | 10.9 |
| M27 | CGACnnC | 3725 | 399 | 0.10 | 19.9 | - | - | - | - |
| M28 | CCGCnGn | 1874 | 245 | 0.13 | 19.7 | - | - | - | - |
| M29 | CCTCGGY | 381 | 80 | 0.20 | 18.9 | Peroxisome 2 | 32 | 22 | 13.5 |
| M30 | AnnCCAC | 3708 | 373 | 0.10 | 18.6 | - | - | - | - |
Each motif shown here is the representative motif (i.e. the one with highest MCS score) from each cluster. N and k respectively represent the number of total occurrences in F.g. and the number of occurrences conserved in all four Fusarium genomes. C.R. is the conservation rate of the motif (= k/N) and MCS is the motif conservation score. * The promoter enrichment statistics is for the motif with the highest enrichment score (10th column) within each cluster shown in the 1st column. The names of the functional categories are derived from the GO annotation of F. g. The number associated with each category represents the cluster as identified by the k-means clustering on the expression data within each category. Enrichment score is in the unit of -log10(p-value).