Table 2.
Regions larger than 5 kb showing some of the characteristics1 of bacteriophages (ϕ) and GIs.
| Type | Size (kb) | GC content | CDSs | Description relevant content |
| Chr I | ||||
| ϕ VS1 | 8.8 | 33.9 | VSAL_I0388-I0398 | Putative remnant harbouring shufflon-specific DNA recombinase |
| ϕ VS2 | 15.2 | 40.5 | VSAL_I0764-I0783 | Compound transposon harbouring phage remnants |
| ϕ VS3 | 6.8 | 34.3 | VSAL_I0966-I0969 | Putative phage remnant harbouring a phage integrase |
| ϕ VS4 | 34.1 | 40.8 | VSAL_I1008-I1051 | Complete K139-like phage. Flanked by one IS element |
| ϕ VS5 | 10.7 | 31.5 | VSAL_I1921-I1930 | Phage remnant harbouring putative exported proteins. Flanked by one IS element |
| ϕ VS6 | 12.2 | 36.2 | VSAL_I2480-I2489 | Putative phage remnant harbouring a phage integrase. Flanked by one IS element |
| GI-VS1 | 18.9 | 36.7 | VSAL_I0019-I0035 | Compound transposon harbouring duplicated plasmid genes |
| GI-VS2 | 13.7 | 38.3 | VSAL_I0056-I0070 | Compound transposon encoding chromosome partitioning proteins |
| GI-VS3 | 18.8 | 39.8 | VSAL_I0129-I0144 | Compound transposon encoding proteins involved in siderophore synthesis and uptake |
| GI-VS4 | 13.9 | 40.6 | VSAL_I0884-I0872 | Putative GI, encoding exported proteins, a peptidase and a nuclease |
| GI-VS5 | 24.2 | 38.2 | VSAL_I1105-I1125 | Putative GI encoding a putative protein secretion system (T6SSI). Flanked by one IS element |
| GI-VS6 | 23.5 | 36.8 | VSAL_I1166-I1185 | Compound transposon encoding a putative protein secretion system (T6SSII) |
| GI-VS7 | 19.7 | 35.9 | VSAL_I1463-I1492 | Compound transposon encoding a antibiotic resistance protein and a cold-shock protein |
| GI-VS8 | 10.5 | 33.3 | VSAL_I1620-I1633 | Compound transposon encoding various proteins with unknown function |
| GI-VS9 | 10.9 | 39.9 | VSAL_I1787-I1794 | Putative GI, encoding a restriction enzyme and a DNA methylase |
| GI-VS10 | 38.2 | 36.2 | VSAL_I3009-I3042 | Compound transposon encoding proteins involved in LPS and CPS biosynthesis |
| Chr II | ||||
| ϕ VSA1 | 26.4 | 36.4 | VSAL_II0534-II0566 | Putative phage remnant harbouring a toxin and an antitoxin |
| ϕ VSA2 | 6.5 | 34.6 | VSAL_II0629-II0638 | Putative phage remnant harbouring a phage integrase |
| ϕ VSA3 | 5.1 | 35.7 | VSAL_II0739-II0745 | Putative remnant harbouring genes for phage replication |
| GI-VSA1 | 13.7 | 39.1 | VSAL_II0117-II0128 | Compound transposon encoding an ABC transporter. Flanked by one IS element |
| GI-VSA2 | 6.4 | 34.6 | VSAL_II0202-II0208 | Compound transposon encoding an acyltransferase and hypothetical proteins |
| GI-VSA3 | 16.2 | 38.2 | VSAL_II0257-II0272 | Compound transposon encoding exported and membrane proteins |
| GI-VSA4 | 15.8 | 37.9 | VSAL_II0321-II0335 | Putative GI encoding a glycosyl transferase and membrane proteins. Flanked by one IS element |
| GI-VSA5 | 15.4 | 35.3 | VSAL_II0362-II0380 | Putative GI encoding a protein secretion system (Flp-type pilus) |
| GI-VSA6 | 8.9 | 37.9 | VSAL_II0986-II0990 | Putative GI encoding hypothetical proteins. Flanked by IS element |
The genome position, sizes, number of CDSs and G+C content of the phages and GIs are listed, together with a description of the most important content2.
1Abnormal G+C content; GC deviation; repeats flanking the ends; insertion next tRNAs; and the presence of phage genes.
2A complete list of the CDSs are provided in [Additional file 10].