Table 1.
Per-library metrics
| |
Blastocyst embryos |
Elongation embryos |
||||
|---|---|---|---|---|---|---|
| Methods |
Me-RDA |
HMe-RDA |
HELP cocktail |
Me-RDA |
HMe-RDA |
HELP cocktail |
| Msp/Hpa | FspBI/BfaI | Msp/Hpa | FspBI/BfaI | |||
| Average raw read length (base pair)a |
285 ± 121 |
235 ± 142 |
257 ± 113 |
274 ± 132 |
115 ± 87 |
241 ± 142 |
| Reads with internal genomic digestion siteb |
17 429 (6.2%) |
3547 (4.8%) |
23 396 (10.0%) |
15,245 (7.9%) |
2134 (3.0%) |
9037 (4.1%) |
| Putative methylated restriction sites within CpG Islandsc | 1198 (33.4%) | 455 (2.1%) | 313 (1.7%) | 899 (34.8%) | 546 (3.5%) | 1583 (4.0%) |
aWith standard deviation. bNumber of cleaned reads (percentage of all cleaned reads) containing an intact site for a methyl-insensitive restriction endonuclease more than 10 nucleotides from the ends. Such sites are indicative of incomplete genomic cleavage. cThe percentage of putative methylated restriction sites within CpG islands over the total number of sites identified for this library. As a reference, CpG islands cover 1.9% of the bovine genome.