mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 202,267 | C→T | P56L (CCT→CTT) | fabZ → | (3R)‑hydroxymyristol acyl carrier protein dehydratase |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 668,742 | C→G | E99Q (GAA→CAA) | rsfS ← | ribosomal silencing factor |
| JC JC | 1,677,978 | IS5 (+) +4 bp | intergenic (‑75/‑446) | pntA ← / → ydgH | pyridine nucleotide transhydrogenase, alpha subunit/DUF1471 family periplasmic protein |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,513,351 | C→A | L104M (CTG→ATG) | nupC → | nucleoside (except guanosine) transporter |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,960,918 | T→G | I81S (ATC→AGC) | rep → | DNA helicase and single‑stranded DNA‑dependent ATPase |
| RA | 4,159,842 | T→C | S317G (AGC→GGC) | sthA ← | pyridine nucleotide transhydrogenase, soluble |
| RA | 4,184,968 | A→C | K1242Q (AAG→CAG) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,188,869 | C→A | R1174S (CGT→AGT) | rpoC → | RNA polymerase, beta prime subunit |
| MC JC | 4,233,804 | 1557 bp→83 bp | coding (47‑1603/1650 nt) | pgi → | glucosephosphate isomerase |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1299302 | 1300828 | 1527 | 45 [42] | [43] 46 | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| * | * | ÷ | NC_000913 | 1978347 | 1979667 | 1321 | 45 [43] | [39] 45 | insB1–insA | insB1, insA |
| * | * | ÷ | NC_000913 | 2469086 | 2470744 | 1659 | 46 [40] | [44] 48 | [gtrB]–gtrS | [gtrB], gtrS |
| * | * | ÷ | NC_000913 | 3423837–3424234 | 3424514–3424238 | 5–678 | 45 [40] | [44] 49 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 6 (0.060) | 99 (0.980) | 68/464 | 0.2 | 96.3% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 2 (0.020) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 6 (0.060) | 99 (0.980) | 70/464 | 0.1 | 96.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 2 (0.020) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||