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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 130,787 | T→A | intergenic (+88/‑88) | acnB → / → yacL | bifunctional aconitate hydratase 2/2‑methylisocitrate dehydratase/UPF0231 family protein |
| 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 | 1,147,311 | A→C | intergenic (+4/‑84) | acpP → / → fabF | acyl carrier protein (ACP)/3‑oxoacyl‑[acyl‑carrier‑protein] synthase II |
| RA | CP009273 | 1,256,820 | A→G | I171T (ATC→ACC) | prs ← | phosphoribosylpyrophosphate synthase |
| RA | CP009273 | 1,783,016 | G→A | D109N (GAT→AAT) | aroH → | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible |
| MC 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 | 1800611 | 1801539 | 929 | 11 [9] | [9] 13 | [pfkB] | [pfkB] |
| * | * | ÷ | CP009273 | 1929098 | 1930598 | 1501 | 10 [9] | [9] 11 | [zwf] | [zwf] |
| * | * | ÷ | CP009273 | 4097474 | 4098443 | 970 | 11 [5] | [9] 10 | pfkA | pfkA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | 34 (0.680) | 14 (0.010) +AATTCCCC |
12/218 | 2.0 | 30.7% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | KX077536 | 8127 = | NA (NA) | intergenic (+52/–) | unknown/– | cat/– | |||||
| * | ? | CP009273 | 3576788 = | NA (NA) | 70 (1.390) | 42/234 | 0.1 | 88.6% | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA |
| ? | CP009273 | = 4232212 | 9 (0.180) | intergenic (‑30/+342) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | = 3577555 | NA (NA) | 50 (0.990) | 37/234 | 0.2 | 92.6% | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E |
| ? | CP009273 | 4232204 = | 4 (0.080) | intergenic (‑22/+350) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | 4532499 = | 37 (0.740) | 14 (0.300) | 13/216 | 1.8 | 24.8% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 51 (1.100) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||