mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 874,860 | G→A | M221I (ATG→ATA) | yliI → | aldose sugar dehydrogenase YliI |
| RA | 1,431,900 | G→A | Q1048* (CAG→TAG) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| RA | 3,793,677 | (T)7→6 | coding (649/699 nt) | rfaY ← | lipopolysaccharide core heptose(II) kinase RfaY |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 274995–275641 | 286981–286346 | 10706–11987 | 65 [64] | [64] 65 | [BW25113_RS01350]–[BW25113_RS01405] | [BW25113_RS01350],BW25113_RS01350,BW25113_RS23265,BW25113_RS01360,yagB,BW25113_RS26050,yagA,yagE,yagF,yagG,yagH,xynR,argF,argL,BW25113_RS23270,BW25113_RS01405,[BW25113_RS01405] |
| * | * | ÷ | NZ_CP009273 | 387279–388427 | 397243 | 8817–9965 | 65 [63] | [1] 114 | [BW25113_RS01920]–[phoA] | [BW25113_RS01920],BW25113_RS01920,BW25113_RS01930,iprA,ampH,sbmA,yaiW,yaiY,yaiZ,ddlA,BW25113_RS25915,iraP,[phoA] |
| * | * | ÷ | NZ_CP009273 | 3629457 | 3646466–3645390 | 15934–17010 | 132 [0] | [63] 65 | yhiN–[BW25113_RS18160] | yhiN,pitA,uspB,uspA,BW25113_RS26225,BW25113_RS26230,dtpB,rsmJ,prlC,rlmJ,gorA,dinQ,arsR,arsB,arsC,BW25113_RS18155,[BW25113_RS18160] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 269666 = | NA (NA) | 139 (1.220) | 114/496 | 0.0 | 98.6% | intergenic (+2/+146) | ykfC/BW25113_RS01325 | reverse transcriptase domain‑containing protein/IS5‑like element IS5 family transposase |
| ? | NZ_CP009273 | = 651895 | 2 (0.020) | intergenic (‑471/‑118) | dcuC/pagP | anaerobic C4‑dicarboxylate transporter DcuC/lipid IV(A) palmitoyltransferase PagP | |||||
| * | ? | NZ_CP009273 | 360104 = | 58 (0.510) | 77 (0.680) | 65/496 | 1.9 | 55.8% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 64 (0.560) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | = 388422 | NA (NA) | 110 (0.970) | 93/494 | 0.3 | 99.1% | intergenic (‑65/‑7) | BW25113_RS01920/BW25113_RS01930 | IS3‑like element IS3 family transposase/autotransporter outer membrane beta‑barrel domain‑containing protein |
| ? | NZ_CP009273 | 397244 = | 1 (0.010) | coding (42/1416 nt) | phoA | alkaline phosphatase | |||||
| * | ? | NZ_CP009273 | 651892 = | 2 (0.020) | 116 (1.020) | 107/496 | 0.1 | 98.3% | intergenic (‑468/‑121) | dcuC/pagP | anaerobic C4‑dicarboxylate transporter DcuC/lipid IV(A) palmitoyltransferase PagP |
| ? | NZ_CP009273 | = 684501 | NA (NA) | intergenic (‑68/+298) | BW25113_RS03405/lnt | IS5‑like element IS5 family transposase/apolipoprotein N‑acyltransferase | |||||
| * | ? | NZ_CP009273 | 1203246 = | 10 (0.090) | 85 (0.800) | 77/464 | 0.7 | 87.9% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 14 (0.130) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 10 (0.090) | 96 (0.900) | 88/464 | 0.3 | 89.2% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 14 (0.130) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 3629456 | 0 (0.000) | 128 (1.130) | 102/494 | 0.1 | 100% | intergenic (+203/+112) | yhiM/yhiN | DUF2776 domain‑containing protein/NAD(P)/FAD‑dependent oxidoreductase |
| ? | NZ_CP009273 | 3645397 = | NA (NA) | pseudogene (747/747 nt) | BW25113_RS18155 | hypothetical protein | |||||