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 | position | mutation | freq | annotation | gene | description |
| RA | 124,241 | C→T | 100% | Q409* (CAG→TAG) | aceE → | pyruvate dehydrogenase E1 component |
| RA | 143,534 | G→A | 12.9% | L252L (CTG→CTA) | yadG → | putative ABC transporter ATP‑binding protein YadG |
| RA | 256,449 | T→C | 17.0% | intergenic (+14/‑78) | gpt → / → frsA | xanthine‑guanine phsophoribosyltransferase/fermentation‑respiration switch protein |
| RA | 256,454 | C→G | 16.2% | intergenic (+19/‑73) | gpt → / → frsA | xanthine‑guanine phsophoribosyltransferase/fermentation‑respiration switch protein |
| RA | 256,459 | G→A | 18.8% | intergenic (+24/‑68) | gpt → / → frsA | xanthine‑guanine phsophoribosyltransferase/fermentation‑respiration switch protein |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 319,152 | C→T | 27.4% | A284T (GCA→ACA) | rclA ← | putative pyridine nucleotide‑disulfide oxidoreductase RclA |
| RA | 696,470 | C→T | 100% | noncoding (35/75 nt) | glnX ← | tRNA‑Gln |
| RA | 754,446 | A→G | 100% | L8P (CTC→CCC) | gltA ← | citrate synthase |
| RA | 760,485 | G→A | 100% | G594S (GGC→AGC) | sucA → | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| JC JC | 1,293,032 | IS1 (–) +8 bp | 100% | intergenic (‑110/‑488) | hns ← / → tdk | DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | insH21 | insH21 | |
| RA | 1,750,629 | A→G | 16.9% | Y129H (TAT→CAT) | ydhX ← | putative 4Fe‑4S ferredoxin‑type protein |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA‑5 ← / → uspC | IS1 protein InsA/universal stress protein C |
| RA | 2,132,787 | A→C | 100% | I204S (ATC→AGC) | wcaA ← | putative colanic acid biosynthesis glycosyl transferase |
| RA | 2,368,101 | T→C | 100% | A21A (GCT→GCC) | arnA → | fused UDP‑4‑amino‑4‑deoxy‑L‑arabinose formyltransferase/UDP‑glucuronate dehydrogenase |
| RA | 2,661,821 | C→G | 100% | C104S (TGC→TCC) | iscR ← | DNA‑binding transcriptional dual regulator IscR |
| RA | 2,934,179 | C→T | 23.5% | intergenic (‑491/‑56) | fucA ← / → fucP | L‑fuculose‑phosphate aldolase/L‑fucose:H(+) symporter |
| RA | 3,041,634 | A→C | 100% | T108P (ACC→CCC) | ygfZ → | folate‑binding protein |
| RA | 3,121,334 | G→A | 20.0% | intergenic (‑55/+300) | glcA ← / ← glcB | glycolate/lactate:H(+) symporter GlcA/malate synthase G |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph] | [rph] | |
| RA | 3,991,432 | C→T | 23.6% | P94S (CCA→TCA) | cyaA → | adenylate cyclase |
| JC | 4,001,645 | Δ5 bp | 84.6% | coding (220‑224/951 nt) | corA → | Ni(2(+))/Co(2(+))/Mg(2(+)) transporter |
| RA | 4,155,549 | C→A | 34.0% | T183T (ACC→ACA) | argC → | N‑acetylglutamylphosphate reductase |
| RA | 4,184,543 | C→A | 100% | P1100Q (CCG→CAG) | rpoB → | RNA polymerase subunit beta |
| RA | 4,296,060 | C→T | 27.0% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 366282 | 366406 | 125 | 4 [3] | [3] 4 | [lacZ] | [lacZ] |
| * | * | ÷ | NC_000913 | 2066291–2066464 | 2066577–2066466 | 3–287 | 4 [3] | [3] 5 | [insH‑6] | [insH‑6] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 566777 = | NA (NA) | 576 (32.140) | 200/262 | NT | 97.3% | noncoding (1/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | = 572471 | 16 (0.890) | coding (6/456 nt) | ybcN | DLP12 prophage; DNA base‑flipping protein | |||||
| * | ? | NC_000913 | 1207790 = | 21 (1.160) | 6 (0.380) | 6/232 | NT | 23.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 20 (1.260) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1560959 = | 14 (0.780) | 3 (0.180) | 3/242 | NT | 15.9% | coding (1523/1551 nt) | ddpA | putative D,D‑dipeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1561038 = | 19 (1.150) | coding (1444/1551 nt) | ddpA | putative D,D‑dipeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 2284735 | 11 (0.610) | 3 (0.180) | 3/248 | NT | 23.7% | coding (360/1761 nt) | yejM | putative cardiolipin transport protein |
| ? | NC_000913 | = 2284750 | 9 (0.530) | coding (375/1761 nt) | yejM | putative cardiolipin transport protein | |||||
| * | ? | NC_000913 | 2662477 = | NA (NA) | 4 (0.230) | 4/250 | NT | NA | noncoding (8/37 nt) | other | REP184d |
| ? | NC_000913 | 2662549 = | NA (NA) | noncoding (27/37 nt) | other | REP184f | |||||
| * | ? | NC_000913 | 4472126 = | 14 (0.780) | 3 (0.180) | 3/246 | NT | 19.3% | coding (270/936 nt) | pyrB | aspartate carbamoyltransferase catalytic subunit |
| ? | NC_000913 | 4472193 = | 12 (0.710) | coding (203/936 nt) | pyrB | aspartate carbamoyltransferase catalytic subunit | |||||