Table A2.
DPB count for putative orthologs data set. Count of unrecovered DPBs for each reference set of the putative orthologs data set; numbers in parentheses indicate set size/maximal possible values. Values for k are identical to Table 3; order of methods is determined as in Table 3.
| Reference set | ||||||||
|---|---|---|---|---|---|---|---|---|
|
|
||||||||
| F-S | F-L | M-S | M-L | |||||
| No. |
|
Method |
|
k | (50) | (52) | (80) | (38) |
| 1 | 20.5 | d PB-ML | CE | — | 1 | 1 | 3 | 1 |
| 2 | 24.5 | d PB-SIM | CE | — | 1 | 1 | 4 | 1 |
| 3 | 25.5 | d LZ | CE | — | 1 | 1 | 3 | 2 |
| 4.5 | 29.5 | d F | CE | 6 | 2 | 1 | 3 | 1 |
| 4.5 | 29.5 | d E | CE | 6 | 1 | 1 | 4 | 2 |
| 6 | 31.0 | d PB-SIM | AA | — | 1 | 2 | 4 | 1 |
| 7 | 32.0 | d P | AA | 4 | 1 | 2 | 3 | 2 |
| 8.5 | 41.0 | d S | AA | 3 | 1 | 0 | 8 | 4 |
| 8.5 | 41.0 | B-bin | CE | 4 | 1 | 0 | 8 | 4 |
| 10 | 42.0 | d F | AA | 4 | 1 | 3 | 5 | 2 |
| 11 | 42.5 | d S | CE | 4 | 2 | 0 | 6 | 3 |
| 12.5 | 44.0 | B-bin | AA | 3 | 1 | 1 | 6 | 4 |
| 12.5 | 44.0 | d E | AA | 4 | 1 | 2 | 5 | 3 |
| 14 | 45.0 | d PB-ML | AA | — | 2 | 2 | 4 | 2 |
| 15 | 45.5 | d ACS | AA | — | 1 | 1 | 14 | 3 |
| 16.5 | 48.0 | d P | CE | 4 | 3 | 0 | 5 | 4 |
| 16.5 | 48.0 | d ACS | CE | — | 2 | 1 | 8 | 2 |
| 18 | 54.5 | d LZ | AA | — | 2 | 1 | 7 | 4 |
| 19 | 73.5 | d C | AA | 4 | 2 | 4 | 15 | 11 |
| 20 | 78.5 | d C | CE | 4 | 3 | 7 | 17 | 5 |