mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 306,101 | IS2 (–) +5 bp | coding (713‑717/1644 nt) | ecpD ← | fimbrial adhesin EcpD |
| RA | 313,543 | G→A | intergenic (‑301/‑1748) | ykgR ← / → insE1 | putative membrane protein YkgR/IS3 element protein InsE |
| MC JC | 339,199 | Δ36,219 bp | [yahG]–mhpE | 31 genes [yahG], yahH, yahI, yahJ, yahK, yahL, yahM, yahN, yahO, prpR, prpB, prpC, prpD, prpE, codB, codA, cynR, cynT, cynS, cynX, lacA, lacY, lacZ, lacI, mhpR, mhpA, mhpB, mhpC, mhpD, mhpF, mhpE |
|
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,632,837 | A→G | intergenic (‑552/‑53) | ydfJ ← / → ynfT | putative transporter YdfJ/protein YnfT |
| RA | 1,643,679 | A→T | L209Q (CTG→CAG) | ydfU ← | protein YdfU |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,695,565 | C→T | G169G (GGG→GGA) | uidA ← | beta‑glucuronidase |
| RA | 1,699,275 | C→T | intergenic (‑95/‑80) | malI ← / → malX | DNA‑binding transcriptional repressor MalI/PTS enzyme IIBC component MalX |
| MC JC | 1,978,503 | Δ776 bp | insB5–insA5 | insB5, insA5 | |
| RA | 2,867,455 | G→A | Q33* (CAG→TAG) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 4,285,202 | A→C | T4T (ACT→ACG) | yjcH ← | DUF485 domain‑containing inner membrane protein YjcH |
| RA | 4,285,205 | G→A | G3G (GGC→GGT) | yjcH ← | DUF485 domain‑containing inner membrane protein YjcH |
| RA | 4,285,320 | +A | intergenic (‑107/+93) | yjcH ← / ← acs | DUF485 domain‑containing inner membrane protein YjcH/acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,400 | G→C | intergenic (‑187/+13) | yjcH ← / ← acs | DUF485 domain‑containing inner membrane protein YjcH/acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,782 | T→C | A530A (GCA→GCG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,788 | C→T | G528G (GGG→GGA) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,818 | G→A | D518D (GAC→GAT) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,977 | T→C | V465V (GTA→GTG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,986 | A→G | G462G (GGT→GGC) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,995 | G→A | A459A (GCC→GCT) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,285,998 | C→G | G458G (GGG→GGC) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,001 | C→T | E457E (GAG→GAA) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,100 | G→C | T424T (ACC→ACG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,118 | G→A | T418T (ACC→ACT) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,202 | A→G | I390I (ATT→ATC) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,241 | A→T | R377R (CGT→CGA) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,256 | G→A | I372I (ATC→ATT) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,268 | G→C | G368G (GGC→GGG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,289 | G→A | I361I (ATC→ATT) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,301 | T→C | A357A (GCA→GCG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,286,370 | G→C | P334P (CCC→CCG) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,287,586 | G→A | intergenic (‑215/‑25) | acs ← / → ytcB | acetyl‑CoA synthetase (AMP‑forming)/protein YtcB |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,915 | C→T | A71T (GCG→ACG) | yjcO ← | Sel1 repeat‑containing protein YjcO |
| RA | 4,325,644 | C→T | S33N (AGC→AAC) | yjdN ← | PF06983 family protein YjdN |
| RA | 4,331,890 | C→T | L463L (CTC→CTT) | proP → | osmolyte:H(+) symporter ProP |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 401670 | 402396 | 727 | 48 [0] | [2] 3 | [phoA] | [phoA] |
| * | * | ÷ | NC_000913 | 1694762 | 1695469 | 708 | 3 [0] | [0] 6 | uidA | beta‑glucuronidase |
| * | * | ÷ | NC_000913 | 3423908–3424234 | 3424420–3424238 | 5–513 | 3 [2] | [2] 3 | rrlD | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 4305538 | 4318237 | 12700 | 8 [2] | [2] 3 | [yjcS]–[phnK] | [yjcS],alsK,alsE,alsC,alsA,alsB,alsR,rpiB,yjdP,phnP,phnO,phnN,phnM,phnL,[phnK] |
| * | * | ÷ | NC_000913 | 4318274 | 4324314 | 6041 | 3 [2] | [0] 27 | [phnK]–[phnD] | [phnK],phnJ,phnI,phnH,phnG,phnF,[phnD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 401669 | 0 (0.000) | 48 (1.060) | 44/472 | 0.2 | 99.0% | intergenic (+23/‑78) | iraP/phoA | anti‑adaptor protein IraP/alkaline phosphatase |
| ? | NC_000913 | 402398 = | 1 (0.020) | coding (652/1416 nt) | phoA | alkaline phosphatase | |||||
| * | ? | NC_000913 | 1207790 = | 12 (0.260) | 10 (0.230) | 10/456 | 1.7 | 45.2% | coding (290/630 nt) | ycfK | protein StfP |
| ? | NC_000913 | 1209619 = | 13 (0.300) | intergenic (‑500/‑66) | tfaE/pinE | putative tail fiber assembly protein TfaE/site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | = 1207805 | 11 (0.230) | 29 (0.660) | 26/456 | 0.6 | 71.4% | coding (305/630 nt) | ycfK | protein StfP |
| ? | NC_000913 | = 1209602 | 13 (0.300) | intergenic (‑483/‑83) | tfaE/pinE | putative tail fiber assembly protein TfaE/site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | = 4305533 | 2 (0.040) | 19 (0.420) +CGCCGCTTCA |
15/468 | 1.2 | 95.2% | coding (1065/1986 nt) | yjcS | linear primary‑alkylsulfatase |
| ? | NC_000913 | 4324315 = | 0 (0.000) | coding (38/1017 nt) | phnD | phosphonate/phosphate ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 4305537 | 2 (0.040) | 6 (0.130) +CCGCTTCA |
6/472 | 2.4 | 86.1% | coding (1061/1986 nt) | yjcS | linear primary‑alkylsulfatase |
| ? | NC_000913 | 4324315 = | 0 (0.000) | coding (38/1017 nt) | phnD | phosphonate/phosphate ABC transporter periplasmic binding protein | |||||