Table 5.
Comparison Results with BLAST
| GFScan | TBLASTN | BLASTN | |||||
| E<E m | E<1e− 4 | E<10 | E<10 | ||||
| A. NGIC Family (E m = 9e − 6) | |||||||
| Known member | 37 | 37 | 37 | 37 | 37 | ||
| Location found | 38 | 45 | 48 | 59 | 33 | ||
| Known location found | 29 | 29 | 29 | 29 | 28 | ||
| Potential candidates | 8 | 8 | 8 | 8 | 5 | ||
| False positives | 1 | 8 | 11 | 22 | 0 | ||
| Known location missed | 8 | 8 | 8 | 8 | 9 | ||
| B. CA Family (E m = 9e − 10) | |||||||
| Known member | 14 | 14 | 14 | 14 | 14 | ||
| Location found | 19 | 19 | 23 | 38 | 16 | ||
| Known location found | 12 | 12 | 12 | 12 | 11 | ||
| Potential candidates | 6 | 6 | 6 | 6 | 5 | ||
| False positives | 1 | 1 | 5 | 20 | 0 | ||
| Known location missed | 2 | 2 | 2 | 2 | 3 | ||
| C. DH-Domain Family (E m = 1c − 8) | |||||||
| Known member | 8 | 8 | 8 | 8 | 8 | ||
| Location found | 9 | 11 | 16 | 44 | 5 | ||
| Known location found | 7 | 7 | 7 | 7 | 5 | ||
| Potential candidates | 1 | 1 | 1 | 1 | 0 | ||
| False positives | 1 | 3 | 8 | 36 | 0 | ||
| Known location missed | 1 | 1 | 1 | 1 | 3 | ||
| D. ETS-Domain Family (E m = 1c − 10) | |||||||
| Known member | 19 | 19 | 19 | 19 | 19 | ||
| Location found | 26 | 34 | 37 | 58 | 15 | ||
| Known location found | 18 | 18 | 18 | 18 | 14 | ||
| Potential candidates | 8 | 8 | 8 | 8 | 1 | ||
| False positives | 0 | 8 | 11 | 32 | 0 | ||
| Known location missed | 1 | 1 | 1 | 1 | 5 | ||
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↵ E m: The minimum E-value used to find all known members by TBLASTN.
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↵Genomic location that is not related to known members. The translated protein could match regular expression pattern of the gene family in the PROSITE database.
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↵Genomic location where no gene family member locates (see detail in Methods).
