mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 155,132 | C→G | R161P (CGC→CCC) | pcnB ← | poly(A) polymerase |
| RA | CP009273 | 188,740 | C→G | I133M (ATC→ATG) | pyrH → | uridylate kinase |
| RA | CP009273 | 407,471 | C→T | W156* (TGG→TAG) | araJ ← | arabinose‑inducible putative transporter, MFS family |
| JC JC | CP009273 | 567,750 | IS2 (–) +5 bp | intergenic (+43/‑70) | ybcM → / → ylcH | DLP12 prophage; putative DNA‑binding transcriptional regulator/uncharacterized protein, DLP12 prophage |
| RA | CP009273 | 1,783,016 | G→A | D109N (GAT→AAT) | aroH → | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible |
| JC | CP009273 | 2,400,028 | Δ9 bp | coding (85‑93/939 nt) | lrhA ← | transcriptional repressor of flagellar, motility and chemotaxis genes |
| RA | CP009273 | 3,208,093 | T→C | F563S (TTC→TCC) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | CP009273 | 3,466,500 | G→A | T125I (ACC→ATC) | fusA ← | protein chain elongation factor EF‑G, GTP‑binding |
| RA | CP009273 | 3,547,518 | G→A | E359K (GAA→AAA) | malT → | mal regulon transcriptional activator |
| RA | CP009273 | 3,729,347 | G→A | E337K (GAG→AAG) | xylR → | xylose divergent operon transcriptional activator |
| RA | CP009273 | 4,173,770 | T→G | D866E (GAT→GAG) | rpoB → | RNA polymerase, beta subunit |
| RA | CP009273 | 4,224,841 | C→T | H386Y (CAC→TAC) | pgi → | glucosephosphate isomerase |
| JC | Exported | 918 | Δ8 bp | intergenic (‑126/‑86) | aadA ← / → fdh | aminoglycoside adenylyltransferase (Murphy, 1985)/formate dehydrogenase from Pseudomonas sp. 101 with an N‑terminal his‑tag |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1800610 | 1801548 | 939 | 28 [25] | [24] 27 | [pfkB] | [pfkB] |
| * | * | ÷ | CP009273 | 1929092 | 1930589 | 1498 | 26 [25] | [24] 27 | zwf | zwf |
| * | * | ÷ | CP009273 | 4097471 | 4098459 | 989 | 27 [24] | [25] 26 | pfkA | pfkA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 3576788 = | NA (NA) | 143 (1.490) | 64/234 | 0.1 | 90.5% | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA |
| ? | CP009273 | = 4232212 | 15 (0.160) | intergenic (‑30/+342) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | = 3577555 | NA (NA) | 112 (1.170) | 64/234 | 0.1 | 95.7% | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E |
| ? | CP009273 | 4232204 = | 5 (0.050) | intergenic (‑22/+350) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | = 4532507 | 73 (0.760) | 26 (0.290) | 22/216 | 2.3 | 23.0% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 107 (1.210) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||