Table 3.
Single nucleotide variations unique to F1 strain compared to the wild-type.
| Locus (No. SNVs) | Position | Ref base | Genotype call | Ref amino acid | Amino acid call | PseudoCAP class function | |||
|---|---|---|---|---|---|---|---|---|---|
| PA0719 (3) | 789941a | C | G | Ser | Arg | Hypothetical | Related to phage, transposon, or plasmid | ||
| 789960 | A | C | Arg | Arg | |||||
| 789985a | C | A | Ser | Tyr | |||||
| PA0720 (11) | 790228 | T | C | Tyr | Tyr | DNA replication, recombination, modification and repair | Related to phage, transposon, or plasmid | ||
| 790267 | A | G | Gln | Gln | |||||
| 790312 | A | C | Gly | Gly | |||||
| 790360 | C | T | Ile | Ile | |||||
| 790408b | T | C | Arg | Arg | |||||
| 790411b | G | C | Pro | Pro | |||||
| 790447b | G | A | Gln | Gln | |||||
| 790453b | A | T | Leu | Leu | |||||
| 790521a,b | T | C | Val | Ala | |||||
| 790540b | C | T | Arg | Arg | |||||
| 790580a,b | A | T | Thr | Ser | |||||
| Intergenic | 790604b | C | G | ||||||
| PA0724 (4) | |||||||||
| 791486 | G | A | Ser | Ser | Related to phage, transposon, or plasmid | ||||
| 791518a | C | A | Ala | Asp | |||||
| 791626a | G | C | Ala | Gly | |||||
| 791651 | C | T | Gly | Gly | |||||
| PA0726 (11) | 793023b | C | G | Pro | Pro | Hypothetical | Related to phage, transposon, or plasmid | ||
| 793026b | T | C | Asn | Asn | |||||
| 793056 | G | A | Gln | Gln | |||||
| 793371 | C | G | Leu | Leu | |||||
| 793374 | C | T | Asp | Asp | |||||
| 793389 | T | C | His | His | |||||
| 793410 | T | C | Ile | Ile | |||||
| 793411a | G | A | Val | Ile | |||||
| 793432a | T | G | Ser | Ala | |||||
| 793437 | C | T | Tyr | Tyr | |||||
| 793449 | T | C | Asp | Asp | |||||
| PA0727 (19) | 794872 | G | A | Glu | Glu | Hypothetical | Related to phage, transposon, or plasmid | ||
| 794875 | A | G | Val | Val | |||||
| 795082 | G | T | Arg | Arg | |||||
| 795289 | C | G | Val | Val | |||||
| 795307 | C | T | Arg | Arg | |||||
| 795331 | G | A | Gln | Gln | |||||
| 795349 | C | T | Arg | Arg | |||||
| 795355 | T | C | Ala | Ala | |||||
| 795361 | A | G | Gly | Gly | |||||
| 795391 | G | C | Gly | Gly | |||||
| 795394 | T | C | Leu | Leu | |||||
| 795403 | C | T | His | His | |||||
| 795457 | G | A | Thr | Thr | |||||
| 795499 | C | T | Ala | Ala | |||||
| 795553 | T | C | Tyr | Tyr | |||||
| 795574 | T | C | Phe | Phe | |||||
| 795583 | T | C | Arg | Arg | |||||
| 795598 | T | C | Phe | Phe | |||||
| 795652 | T | G | Ala | Ala | |||||
| PA0728 (10) | 795867 | G | A | Lys | Lys | Putative enzymes | Related to phage, transposon, or plasmid | ||
| 796015 | T | C | Leu | Leu | |||||
| 796035 | C | T | Cys | Cys | |||||
| 796125 | A | G | Arg | Arg | |||||
| 796161 | C | T | Asn | Asn | |||||
| 796203 | C | T | Arg | Arg | |||||
| 796273 | T | C | Leu | Leu | |||||
| 796443 | T | C | Phe | Phe | |||||
| 796446 | C | T | Ala | Ala | |||||
| 796452 | T | C | Thr | Thr | |||||
| Intergenic | 796789 | T | G | ||||||
| 797040 | T | C | |||||||
| PA0729 (3) | 797516 | T | C | Val | Ala | Hypothetical | |||
| 797533 | T | C | Leu | Leu | |||||
| 797550 | C | T | Ser | Ser | |||||
aDenotes a non-synonymous SNV. bDenotes SNVs that are not found in the other 4 SCVs isolated.