mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_vch_pgi | 526,796 | 0 | C | G | 40.7% | 21.9 / 24.7 | 28 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_vch_pgi | 526,800 | 0 | A | G | 36.0% | 22.5 / 16.6 | 25 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_vch_pgi | 526,792 | 0 | A | C | 34.6% | 20.4 / 21.7 | 28 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_vch_pgi | 2,536,370 | 0 | C | G | 24.0% | 46.3 / 12.9 | 25 | intergenic (+27/+16) | crr/pdxK | glucose‑specific enzyme IIA component of PTS/pyridoxal‑pyridoxamine kinase/hydroxymethylpyrimidine kinase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_vch_pgi | 3645087 = | 17 (0.930) | 4 (0.230) | 4/274 | 1.9 | 19.9% | coding (96/2043 nt) | prlC | oligopeptidase A |
| ? | NC_000913_3_vch_pgi | 3645120 = | 16 (0.920) | coding (63/2043 nt) | prlC | oligopeptidase A | |||||
| * | ? | NC_000913_3_vch_pgi | 3375666 = | 19 (1.040) | 4 (0.230) | 4/272 | 1.9 | 18.6% | coding (798/1368 nt) | dcuD | putative transporter |
| ? | NC_000913_3_vch_pgi | 3375686 = | 17 (0.980) | coding (818/1368 nt) | dcuD | putative transporter | |||||
| * | ? | NC_000913_3_vch_pgi | 213093 = | 24 (1.310) | 4 (0.230) | 4/276 | 2.0 | 14.8% | coding (763/1299 nt) | tilS | tRNA(Ile)‑lysidine synthetase |
| ? | NC_000913_3_vch_pgi | 213111 = | 23 (1.310) | coding (781/1299 nt) | tilS | tRNA(Ile)‑lysidine synthetase | |||||
| * | ? | NC_000913_3_vch_pgi | = 720667 | 18 (0.980) | 3 (0.190) | 3/252 | 2.1 | 15.5% | coding (85/258 nt) | ybfK | uncharacterized protein |
| ? | NC_000913_3_vch_pgi | = 720649 | 17 (1.060) | coding (67/258 nt) | ybfK | uncharacterized protein | |||||
| * | ? | NC_000913_3_vch_pgi | = 3106539 | 20 (1.090) | 3 (0.170) | 3/274 | 2.3 | 13.3% | coding (826/1257 nt) | nupG | nucleoside transporter |
| ? | NC_000913_3_vch_pgi | = 3106551 | 20 (1.150) | coding (838/1257 nt) | nupG | nucleoside transporter | |||||
| * | ? | NC_000913_3_vch_pgi | 2291329 = | 23 (1.250) | 3 (0.170) | 3/270 | 2.3 | 12.6% | noncoding (177/199 nt) | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site | RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site |
| ? | NC_000913_3_vch_pgi | 2291352 = | 20 (1.160) | intergenic (+205/+6) | narP/ccmH | response regulator in two‑component regulatory system with NarQ/heme lyase, CcmH subunit | |||||
| * | ? | NC_000913_3_vch_pgi | = 2133461 | NA (NA) | 4 (0.230) | 3/274 | 2.3 | 14.3% | noncoding (30/34 nt) | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_vch_pgi | 3512601 = | 24 (1.380) | intergenic (‑257/+33) | yhfZ/trpS | putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase | |||||
| * | ? | NC_000913_3_vch_pgi | = 349845 | 14 (0.800) | 3 (0.170) | 3/274 | 2.3 | 17.6% | noncoding (241/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences |
| ? | NC_000913_3_vch_pgi | = 349969 | NA (NA) | noncoding (365/365 nt) | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences | |||||
| * | ? | NC_000913_3_vch_pgi | = 1841986 | 19 (1.040) | 3 (0.160) | 3/286 | 2.4 | 13.1% | coding (150/273 nt) | ynjH | DUF1496 family protein |
| ? | NC_000913_3_vch_pgi | = 1842012 | 21 (1.150) | coding (124/273 nt) | ynjH | DUF1496 family protein | |||||
| * | ? | NC_000913_3_vch_pgi | = 1432248 | 23 (1.250) | 3 (0.170) | 3/280 | 2.4 | 12.7% | coding (3200/3363 nt) | stfR | Rac prophage; putative tail fiber protein |
| ? | NC_000913_3_vch_pgi | = 1432262 | 19 (1.070) | coding (3214/3363 nt) | stfR | Rac prophage; putative tail fiber protein | |||||