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 |
| RA | 468,093 | Δ1 bp | coding (40/339 nt) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| RA | 1,075,312 | C→T | S184S (AGC→AGT) | putP → | proline:sodium symporter |
| RA | 1,738,537 | A→T | Q275L (CAG→CTG) | mdtK → | multidrug efflux system transporter |
| RA | 2,054,766 | C→A | G217C (GGT→TGT) | nac ← | nitrogen assimilation regulon transcriptional regulator; autorepressor |
| RA | 2,440,860 | C→A | P31P (CCG→CCT) | aroC ← | chorismate synthase |
| RA | 2,667,677 | G→A | A124V (GCG→GTG) | yphB ← | mutarotase superfamily protein, YphB family |
| RA | 2,718,735 | G→T | P124Q (CCG→CAG) | 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 | 3,960,035 | C→G | R87G (CGC→GGC) | rho → | transcription termination factor |
| RA | 4,142,582 | G→A | H149Y (CAC→TAC) | ppc ← | phosphoenolpyruvate carboxylase |
| RA | 4,390,235 | T→C | I44T (ATC→ACC) | 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 | 345710 | 346909 | 1200 | 21 [19] | [19] 20 | prpC | prpC |
| * | * | ÷ | CP009273 | 748599 | 749949 | 1351 | 20 [19] | [19] 20 | gltA | gltA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | NA (NA) | 113 (2.070) | 72/296 | 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 | 49 (0.900) | 50 (0.920) | 40/296 | 0.4 | 64.1% | intergenic (+15/+418) | insB1/cspH | IS1 transposase B/stress protein, member of the CspA‑family |
| ? | CP009273 | 2269338 = | 7 (0.130) | coding (587/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family | |||||
| * | ? | CP009273 | 1203246 = | 8 (0.150) | 24 (0.490) | 23/264 | 1.4 | 78.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 6 (0.120) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 8 (0.150) | 44 (0.910) | 36/264 | 0.4 | 87.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 6 (0.120) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1391495 | NA (NA) | 50 (0.920) | 41/296 | 0.3 | 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) | 51 (0.940) | 35/294 | 0.6 | 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 | |||||
| * | ? | CP009273 | = 2269346 | 3 (0.060) | 45 (0.830) | 36/296 | 0.6 | 93.8% | coding (595/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family |
| ? | CP009273 | 3576788 = | NA (NA) | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA | |||||