TABLE 4.
Pairwise unique SNPs above 0.1% frequency in φ6 populations
| SNP type and/or location | No. of SNPs by organism and typea |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| φ6-WT |
φ6-E8G |
φ6-G515S |
||||||||||
|
P. pseudoalcaligenes |
P. syringae pv. atrofaciens |
P. syringae pv. tomato |
P. syringae pv. atrofaciens |
P. syringae pv. tomato |
P. syringae pv. atrofaciens |
|||||||
| S | NS | S | NS | S | NS | S | NS | S | NS | S | NS | |
| Noncoding | 14 | 20 | 4 | 29 | 7 | 8 | ||||||
| Coding | 23 | 44 | 19 | 54 | 8 | 20 | 39 | 67 | 7 | 24 | 12 | 16 |
| Small segment | ||||||||||||
| P8 | 2 | 4 | 0 | 1 | 0 | 1 | 2 | 3 | 0 | 0 | 2 | 0 |
| P12 | 0 | 1 | 8 | 14 | 0 | 1 | 4 | 5 | 1 | 0 | 1 | 4 |
| P9 | 0 | 3 | 3 | 7 | 0 | 1 | 4 | 5 | 0 | 0 | 1 | 0 |
| P5 | 2 | 4 | 0 | 1 | 0 | 1 | 2 | 3 | 1 | 1 | 0 | 2 |
| Medium segment | ||||||||||||
| P10 | 0 | 1 | 0 | 2 | 0 | 0 | 1 | 1 | 1 | 0 | 0 | 1 |
| P6 | 0 | 2 | 1 | 1 | 1 | 0 | 1 | 6 | 1 | 3 | 1 | 1 |
| P3 | 7 | 13 | 5 | 17 | 0 | 2 | 11 | 21 | 0 | 3 | 6 | 6 |
| P13 | 0 | 1 | 0 | 1 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 |
| Large segment | ||||||||||||
| P7 | 2 | 3 | 1 | 0 | 2 | 2 | 0 | 1 | 1 | 2 | 0 | 0 |
| P2 | 5 | 7 | 1 | 4 | 4 | 6 | 3 | 10 | 1 | 7 | 0 | 1 |
| P4 | 0 | 3 | 0 | 3 | 1 | 4 | 3 | 5 | 0 | 4 | 0 | 1 |
| P1 | 5 | 2 | 0 | 3 | 0 | 2 | 7 | 6 | 1 | 4 | 1 | 0 |
a
SNPs were detected by deep sequencing using VarScan. S, synonymous change; NS nonsynonymous change.