Table 2. Comparison of complete PacBio EC958 genome with draft 454 EC958 genome.
Variant | 454 contig information2 | |||||||
Position1 | PacBio | 454 | SE15 | Name | Position | Length | Genomic context | Comment3 |
786693 | . | A | . | 00007 | 131223 | 131239 | Intergenic (EC958_0852 and EC958_0854) | Homopolymeric tract |
955837–957967 | N/A | N/A | N/A | 00011 | 62258 | 64195 | Phi1 phage tail region | 2.8 Kb invertable region in Phi1 phage tail region (2 substitutions/20 indels) |
985718 | T | . | T | 00014 | 19202 | 34445 | Intergenic (EC958_1049 and EC958_1050) | Homopolymeric tract |
1493217 | . | T | T | 00033 | 1143 | 74077 | Tryptophan biosynthesis protein TrpCF (EC958_4924) | 454 variant consistent with SE15 genome |
2027391 | A | . | A | 00040 | 28390 | 75386 | Chemotaxis protein CheA (EC958_2110) | Homopolymeric tract |
2598139 | A | . | A | 00085 | 32434 | 57547 | Intergenic (EC958_2623 and EC958_4988) | Homopolymeric tract |
3098765 | A | . | A | 00073 | 3745 | 4934 | Hypothetical protein (EC958_5038) | Homopolymeric tract |
3377055 | . | C | . | 00057 | 28348 | 88502 | Hypothetical protein (EC958_5205) | Homopolymeric tract |
4149057 | A | . | A | 00104 | 7234 | 41331 | Type II restriction enzyme (EC958_4083) | Homopolymeric tract |
4308872 | T | . | T | 00148 | 3658 | 51318 | Intergenic (EC958_4231 and EC958_4232) | Homopolymeric tract |
4380208 | T | . | T | 00146 | 7992 | 42111 | Hypothetical protein (EC958_4927) | Homopolymeric tract |
4756303 | A | . | A | 00117 | 4118 | 15191 | Intergenic (EC958_4610 and EC958_4611) | Homopolymeric tract |
4762264 | T | . | T | 00117 | 10078 | 15191 | Hypothetical protein (EC958_5122) | Homopolymeric tract |
4762871 | A | . | . | 00117 | 10684 | 15191 | Hypothetical protein (EC958_5123) | Homopolymeric tract; 454 variant consistent with SE15 genome |
4776778 | A | . | A | 00119 | 7363 | 155673 | Transcriptional activator CadC (EC958_4623) | Homopolymeric tract |
4938457 | G | T | G | 00158 | 1028 | 1512 | Transposase DDE domain protein (EC958_5125) | 1.5 Kb repeat region duplicated in pEC958 |
4963207–4965562 | N/A | N/A | N/A | 00105 | 1144 | 3727 | Repeat region in GI-LeuX | 3.7 Kb repeat region duplicated in GI-SelC (11 substitutions/4 indels) |
Nucleotide position (or range) in complete PacBio EC958 genome.
Name, position of variant and length of 454 contig from draft 454 assembly.
“Homopolymeric tract” indicates that variant falls within tract of 5 or more nucleotides of same type.