mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC JC | 299,113 | IS5 (–) +4 bp | coding (412‑415/615 nt) | yagU → | DUF1440 family inner membrane protein |
| RA | 753,013 | G→T | E551* (GAA→TAA) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 1,737,874 | G→A | W54* (TGG→TAG) | mdtK → | multidrug efflux system transporter |
| RA | 2,718,678 | C→G | G143A (GGC→GCC) | kgtP ← | alpha‑ketoglutarate transporter |
| RA | 2,719,426 | T→C | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 2,861,917 | G→A | Q66* (CAG→TAG) | nlpD ← | activator of AmiC murein hydrolase activity, lipoprotein |
| RA | 2,870,339 | G→A | G134S (GGC→AGC) | iap → | aminopeptidase in alkaline phosphatase isozyme conversion |
| RA | 3,019,631 | G→T | M169I (ATG→ATT) | guaD → | guanine deaminase |
| RA | 3,029,079 | C→T | A188T (GCT→ACT) | prfB ← | peptide chain release factor RF‑2 |
| RA | 3,960,789 | C→G | T338R (ACA→AGA) | rho → | transcription termination factor |
| RA | 4,049,411 | G→T | Q97K (CAG→AAG) | glnL ← | sensory histidine kinase in two‑component regulatory system with GlnG |
| RA | 4,390,205 | G→T | G34V (GGG→GTG) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 345714 | 346928 | 1215 | 18 [16] | [16] 17 | prpC–[prpD] | prpC, [prpD] |
| * | * | ÷ | CP009273 | 748619 | 749962 | 1344 | 17 [15] | [16] 17 | gltA | gltA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 287112 | NA (NA) | 46 (1.020) | 34/296 | 0.4 | 100% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | CP009273 | = 2269346 | 0 (0.000) | coding (595/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family | |||||
| * | ? | CP009273 | 360104 = | NA (NA) | 62 (1.380) | 48/296 | 0.0 | NA | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | NA (NA) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | = 1046001 | 48 (1.070) | 29 (0.640) | 23/296 | 1.2 | 53.2% | intergenic (+15/+418) | insB1/cspH | IS1 transposase B/stress protein, member of the CspA‑family |
| ? | CP009273 | 2269338 = | 3 (0.070) | coding (587/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family | |||||
| * | ? | CP009273 | 1203246 = | 15 (0.330) | 36 (0.900) | 28/264 | 0.5 | 69.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 18 (0.450) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 14 (0.310) | 34 (0.850) | 30/264 | 0.4 | 69.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 18 (0.450) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1391495 | NA (NA) | 35 (0.780) | 29/296 | 0.7 | 100% | intergenic (+146/‑127) | insH1/ynaJ | IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein |
| ? | CP009273 | = 1972751 | 0 (0.000) | intergenic (‑297/‑483) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 1972748 = | 0 (0.000) | 52 (1.160) | 33/294 | 0.4 | 100% | intergenic (‑294/‑486) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein |
| ? | CP009273 | = 2283592 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||