mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 349,717 | T→C | 8.6% | intergenic (+145/‑295) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 469,883 | A→C | 5.7% | N338T (AAT→ACT) | mdlA → | putative multidrug ABC transporter ATPase |
| RA | 846,123 | T→C | 5.2% | E114G (GAA→GGA) | glnQ ← | glutamine transporter subunit |
| RA | 1,269,032 | G→T | 11.5% | intergenic (+13/+136) | kdsA → / ← ldrA | 3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small |
| RA | 1,281,959 | A→T | 5.8% | Q699L (CAA→CTA) | narG → | nitrate reductase 1, alpha subunit |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,708,662 | C→G | 10.8% | Q582E (CAA→GAA) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| RA | 1,865,682 | G→C | 6.1% | intergenic (‑46/+44) | yeaE ← / ← mipA | aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent/scaffolding protein for murein synthesizing machinery |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 1,981,989 | A→G | 5.3% | Y133Y (TAT→TAC) | otsB ← | trehalose‑6‑phosphate phosphatase, biosynthetic |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,105,985 | T→C | 5.1% | I25V (ATT→GTT) | wbbI ← | d‑Galf:alpha‑d‑Glc beta‑1,6‑galactofuranosyltransferase |
| RA | 2,148,944 | C→T | 6.7% | P424L (CCG→CTG) | yegD → | Hsp70 chaperone family protein |
| RA | 2,220,969 | G→A | 5.3% | A340V (GCA→GTA) | bglX ← | beta‑D‑glucoside glucohydrolase, periplasmic |
| RA | 2,515,731 | C→A | 5.8% | E700D (GAG→GAT) | yfeA ← | putative diguanylate cyclase |
| RA | 2,767,668 | C→A | 5.4% | intergenic (+315/‑40) | rnlB → / → yfjP | CP4‑57 prophage; uncharacterized protein/CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| RA | 2,942,042 | G→T | 5.9% | T175N (ACT→AAT) | gcvA ← | glycine cleavage system transcriptional activator; autorepressor |
| RA | 3,269,954 | T→C | 8.5% | intergenic (+354/+260) | yhaC → / ← rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| RA | 3,336,864 | A→C | 100% | intergenic (‑63/+97) | ibaG ← / ← mlaB | acid stress protein; putative BolA family transcriptional regulator/ABC transporter maintaining OM lipid asymmetry, cytoplasmic STAS component |
| RA | 3,528,908 | T→A | 12.9% | I81N (ATC→AAC) | yrfG → | GMP/IMP nucleotidase |
| RA | 3,606,793 | A→G | 5.1% | Q115R (CAG→CGG) | zntA → | zinc, cobalt and lead efflux system |
| RA | 4,116,703 | T→G | 100% | K173N (AAA→AAC) | glpK ← | glycerol kinase |
| MC JC | 4,188,959 | Δ9 bp | 100% | coding (3611‑3619/4224 nt) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,326,242 | C→T | 5.8% | intergenic (‑500/+158) | yjdN ← / ← yjdM | metalloprotein superfamily protein/zinc‑ribbon family protein |
| RA | 4,614,424 | T→A | 6.7% | intergenic (+163/+257) | yjjV → / ← yjjW | putative DNase/putative pyruvate formate lyase activating enzyme |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423761–3424533 | 3424533 | 1–773 | 23 [22] | [22] 23 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 42 (0.550) | 29 (0.430) | 26/244 | NT | 43.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 39 (0.580) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 42 (0.550) | 21 (0.310) | 18/244 | NT | 35.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 39 (0.580) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 1 (0.010) | 50 (0.670) | 45/268 | NT | 99.0% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 4035418 | NA (NA) | 4 (0.050) | 3/270 | NT | NA | intergenic (+266/‑112) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4035484 | NA (NA) | intergenic (+332/‑46) | hemG/rrsA | protoporphyrin oxidase, flavoprotein/16S ribosomal RNA of rrnA operon | |||||