Table 1.
454 Pyrosequencing results for the pepper ( Capsicum annuum ) varieties, Saengryeg 211 and Saengryeg 213
| 454 pyrosequencing terms | Saengryeg 211 | Saengryeg 213 |
|---|---|---|
| Reads | ||
| The Number of raw sequencing reads (n) | 361,671 | 274,269 |
| Bases of raw sequencing reads (bp) | 164,494,414 | 124,608,071 |
| The average of read length (bp) | 454,818 | 454,328 |
| Assembleda | 282,705 | 217,905 |
| Partialb | 50,330 | 33,427 |
| Singletonsc | 18,147 | 15,129 |
| Repeatd | 111 | 242 |
| Outliere | 5,075 | 3,699 |
| Too shortf | 5,273 | 3,831 |
| The number of bases, Q20 ≤ (bp)g | 93,272,495 | 70,812,087 |
| The number of reads, Q20 ≤ (n) | 269,198 | 205,166 |
| Isotigs | ||
| Number of isotigs (n) | 23,821 | 17,813 |
| Average count of contigs in the isotigs (n) | 1.401 | 1.317 |
| Largest count of contigs in the isotigs (n) | 12 | 16 |
| The number of isotigs assembled by one contig (n) | 18,363 | 14,556 |
| The total number of bases in the isotig (bp) | 20,787,054 | 14,965,217 |
| The average isotig size (n) | 872.636 | 840.129 |
| N50 isotig size (bp)h | 1,028 | 977 |
| The size of the largest isotig (bp) | 17,462 | 7,300 |
| Singletons | ||
| Number of singletons after SeqClean (minimum length, 100) | 18,147 | 15,129 |
| Number of singletons after Lucy (minimum length, 100) | 17,054 | 14,310 |
| Number of valid singletons after Lucy | 16,958 | 14,244 |
aThe number of read’s bases used in the assembly computation.
bOnly part of the read was included in the assembly.
cThe read did not overlap with any other reads in the input.
dThe read deemed to be from repeat regions.
eThe read was identified by the GS De Novo Assembler as problematic.
fThe read was too short to be used in the computation.
gThe quality of read was higher than or equal to 20.
hHalf of all bases reside in contigs of this size or longer.