Table 1.
Statistics for gene prediction and assembly of Montipora, Astreopora and other coral genomes
| Genus | Montipora | Astreopora | Acropora | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Species | M. cactus | M. cactus | M. efflorescens | M. efflorescens | M. capitata | M. capitata | A. myriophthalma | A. myriophthalma | A. tenuis | A. digitifera | A. milleporaa |
| References | This study | Shinzato et al. [23] | This study | Shinzato et al. [23] | Shumaker et al. [28] | Helmkampf et al. [27] | This study | Shinzato et al. [23] | Shinzato et al. [23] | Shinzato et al. [23] | Ying et al. [25] |
| Genome assembly | |||||||||||
| Assembly length | 640,828,888 | 65,27,28,006 | 63,05,35,801 | 64,33,12,941 | 88,57,04,498 | 61,45,09,607 | 37,34,03,447 | 37,34,03,447 | 40,30,90,051 | 41,58,26,927 | 38,65,99,652 |
| No. of scaffolds | 3532 | 4925 | 3589 | 5162 | 3043 | 27,865 | 1149 | 1149 | 1538 | 955 | 3869 |
| N50 | 9,38,091 | 8,98,511 | 11,68,433 | 11,32,316 | 5,40,623 | 1,85,537 | 16,34,277 | 16,34,277 | 11,65,818 | 18,56,312 | 4,94,532 |
| Genes | |||||||||||
| No. of protein coding genes | 29,158 | 21,983 | 29,424 | 21,370 | 63,227 | 36,691 | 25,406 | 27,576 | 22,905 | 22,327 | 23,710 |
| Avg. length | 12,905 | 15,343 | 12,546 | 15,531 | 6507b | 4048b | 9550 | 5503b | 10,298 | 10,445 | 9294 |
| Transcripts | |||||||||||
| Avg. no. of CDS (exon) per gene | 6.6 (7.2) | 7.7 (7.9) | 6.5 (7.1) | 7.8 (8.0) | 4.5 (NA) | 3.62 (NA) | 6.0 (6.4) | 5.0 (NA) | 7.2 (8.1) | 6.6 (8,5) | 7.2 (7.5) |
| Avg. CDS (exon) length per gene (bp) | 1411 (2,033) | 1871 (2139) | 1390 (1994) | 1876 (2143) | 1162 (NA) | 1103 (NA) | 1647 (2132) | 1426 (NA) | 1562 (2383) | 1435 (2415) | 1600 (2404) |
| Avg. CDS (exon) length | 215 (280) | 244 (271) | 215 (280) | 241 (270) | 259 (NA) | 305 (NA) | 230 (279) | 283 (NA) | 216 (294) | 217 (285) | 312 (317) |
| Tortal CDS (exon) length (Mbp) | 41 (59) | 41 (45) | 41 (59) | 40 (44) | 73 (NA) | 40 (NA) | 42 (54) | 41 (NA) | 36 (55) | 32 (54) | 38 (57) |
| BUSCO completeness (v5.0) | |||||||||||
| Complete | 93.3% | 87.9% | 91.2% | 84.1% | 93.4%b | 64.2%b | 94.5% | 78.4%b | 92.9% | 89.3% | 94.7% |
| Single-copy | 92.5% | 87.3% | 89.8% | 83.6% | 75.1%b | 63.7%b | 93.2% | 77.7%b | 92.2% | 88.6% | 93.7% |
| Duplicated | 0.8% | 0.6% | 1.4% | 0.5% | 18.3%b | 0.5%b | 1.3% | 0.7%b | 0.7% | 0.7% | 1.0% |
| Fragmented | 4.1% | 5.7% | 4.5% | 7.2% | 4.1%b | 13.5%b | 3.1% | 7.7%b | 2.9% | 4.7% | 2.7% |
| Missing | 2.6% | 6.4% | 4.3% | 8.7% | 2.5%b | 2.5%b | 2.4% | 13.9%b | 4.2% | 6.0% | 2.6% |
aRefSeq assembly (GCF_004143615.1) was used for the analysis
bCDS were used for the calculation