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 | 468,126 | Δ1 bp | coding (73/339 nt) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| RA | 1,683,547 | G→T | V239L (GTG→TTG) | manA → | mannose‑6‑phosphate isomerase |
| RA | 1,882,644 | (T)6→5 | coding (1360/1686 nt) | fadD ← | acyl‑CoA synthetase (long‑chain‑fatty‑acid‑‑CoA ligase) |
| RA | 2,563,117 | G→A | H194Y (CAC→TAC) | eutJ ← | ethanolamine utilization protein, HSP70/actin superfamily protein |
| RA | 2,652,228 | C→A | G23C (GGT→TGT) | hscA ← | DnaK‑like molecular chaperone specific for IscU |
| RA | 2,719,426 | T→C | intergenic (‑321/+2) | kgtP ← / ← rrfG | alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon |
| RA | 3,960,102 | G→T | R109L (CGC→CTC) | rho → | transcription termination factor |
| RA | 4,390,235 | T→A | I44N (ATC→AAC) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| RA | 4,492,563 | T→A | H229L (CAC→CTC) | insG ← | IS4 transposase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 345701 | 346935 | 1235 | 59 [54] | [57] 58 | prpC–[prpD] | prpC, [prpD] |
| * | * | ÷ | CP009273 | 748577 | 749980 | 1404 | 58 [55] | [57] 58 | gltA | gltA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | NA (NA) | 183 (1.630) | 106/290 | 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 | = 1391495 | NA (NA) | 105 (0.930) | 73/290 | 0.5 | 92.9% | intergenic (+146/‑127) | insH1/ynaJ | IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein |
| ? | CP009273 | = 1972751 | 8 (0.070) | intergenic (‑297/‑483) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | 1972748 = | 5 (0.040) | 127 (1.140) | 78/288 | 0.3 | 96.2% | 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 | 2269338 = | 15 (0.130) | 116 (1.030) | 88/290 | 0.1 | 88.5% | coding (587/1026 nt) | yejE | microcin C transporter YejABEF, permease subunit; ABC family |
| ? | CP009273 | = 3577555 | NA (NA) | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E | |||||
| * | ? | CP009273 | = 2269346 | 10 (0.090) | 121 (1.080) | 81/290 | 0.3 | 92.4% | 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 | |||||
| * | ? | CP009273 | 2507756 = | NA (NA) | 131 (1.190) | 94/284 | 0.0 | 94.4% | intergenic (+33/‑54) | nupC/insL1 | nucleoside (except guanosine) transporter/IS186 transposase |
| ? | CP009273 | = 3052017 | 8 (0.070) | intergenic (‑248/+8) | serA/rpiA | D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive | |||||
| * | ? | CP009273 | = 2509092 | NA (NA) | 99 (0.910) | 75/282 | 0.4 | 90.2% | intergenic (+170/+30) | insL1/yfeA | IS186 transposase/putative diguanylate cyclase |
| ? | CP009273 | 3052006 = | 11 (0.100) | intergenic (‑237/+19) | serA/rpiA | D‑3‑phosphoglycerate dehydrogenase/ribose 5‑phosphate isomerase, constitutive | |||||