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 |
| RA | 165,749 | Δ1 bp | intergenic (+42/‑5) | rrnI‑5S → / → trnI‑Asn | ribosomal RNA‑5S/tRNA‑Asn |
| RA | 165,751 | Δ1 bp | intergenic (+44/‑3) | rrnI‑5S → / → trnI‑Asn | ribosomal RNA‑5S/tRNA‑Asn |
| RA | 165,826 | +C | intergenic (+1/‑4) | trnI‑Asn → / → trnI‑Thr | tRNA‑Asn/tRNA‑Thr |
| RA | 166,037 | +T | intergenic (+4/‑27) | trnI‑Gly → / → trnI‑Arg | tRNA‑Gly/tRNA‑Arg |
| RA | 166,345 | Δ1 bp | intergenic (+17/‑155) | trnI‑Ala → / → rrnH‑16S | tRNA‑Ala/ribosomal RNA‑16S |
| RA | 490,812 | G→T | P78T (CCT→ACT) | ydzK ← | hypothetical protein |
| RA | 557,870 | (T)5→6 | intergenic (+421/‑3) | yddT → / → ydzN | putative exported phage protein/hypothetical protein |
| RA | 608,219 | (A)5→6 | intergenic (‑144/+27) | ydgF ← / ← dinB | putative amino acid permease/nuclease inhibitor |
| RA | 756,382 | C→A | P82T (CCA→ACA) | cotJB → | component of the inner spore coat |
| RA | 1,317,152 | +GT | intergenic (+23/+5) | phrA → / ← yjpA | secreted inhibitor of the activity of phosphatase RapA (quorum sensing)/putative enzyme |
| RA | 1,317,158 | (T)5→6 | coding (257/258 nt) | yjpA ← | putative enzyme |
| RA | 1,769,727 | T→C | F263L (TTT→CTT) | pdeB → | 2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation |
| RA | 1,769,799 | T→C | intergenic (+64/‑136) | pdeB → / → spoVS | 2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation/regulator required for dehydratation of the spore core and assembly of the coat (stage V sporulation) |
| RA | 1,769,812 | A→G | intergenic (+77/‑123) | pdeB → / → spoVS | 2'3' and 3'5' cyclic nucleotide monophosphates phosphodiesterase involved in biofilm formation/regulator required for dehydratation of the spore core and assembly of the coat (stage V sporulation) |
| RA | 2,097,087 | (A)7→8 | intergenic (‑111/+39) | azoJ ← / ← yocK | FMN‑dependent NADH‑azoreductase/putative general stress protein |
| RA | 2,271,424 | T→C | R78R (AGA→AGG) | uvrX ← | lesion bypass phage DNA polymerase; phage SPbeta |
| RA | 2,271,505 | C→T | V51V (GTG→GTA) | uvrX ← | lesion bypass phage DNA polymerase; phage SPbeta |
| RA | 2,271,523 | A→C | D45E (GAT→GAG) | uvrX ← | lesion bypass phage DNA polymerase; phage SPbeta |
| RA | 2,480,646 | 2 bp→AT | intergenic (+21/+103) | zwf → / ← gndA | glucose‑6‑phosphate 1‑dehydrogenase (NADP‑dependent)/NADP+‑dependent 6‑P‑gluconate dehydrogenase |
| RA | 2,480,654 | Δ1 bp | intergenic (+29/+96) | zwf → / ← gndA | glucose‑6‑phosphate 1‑dehydrogenase (NADP‑dependent)/NADP+‑dependent 6‑P‑gluconate dehydrogenase |
| RA | 2,480,667 | Δ1 bp | intergenic (+42/+83) | zwf → / ← gndA | glucose‑6‑phosphate 1‑dehydrogenase (NADP‑dependent)/NADP+‑dependent 6‑P‑gluconate dehydrogenase |
| RA | 2,581,732 | (T)6→7 | intergenic (‑115/+39) | pstS ← / ← pbpA | phosphate ABC transporter (phosphate binding lipoprotein)/transpeptidase (penicillin‑binding protein 2A) |
| RA | 3,770,066 | (A)8→9 | intergenic (‑613/+38) | ywzE ← / ← csbD | conserved protein of unknown function (putative phage interference protein)/stress response protein |
| RA | 3,935,825 | Δ1 bp | coding (1190/1191 nt) | rlmI ← | large subunit ribosomal RNA m5C1962 methyltransferase |
| RA | 3,948,008 | T→A | L284H (CTT→CAT) | tyrZ → | tyrosyl‑tRNA synthetase |
| RA | 4,155,395 | (A)5→6 | intergenic (‑186/+38) | trnY‑Lys ← / ← purA | tRNA‑Lys/adenylosuccinate synthetase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000964 | 161181–161238 | 161505–161245 | 8–325 | 8 [7] | [7] 8 | rrnI‑16S | ribosomal RNA‑16S |
| * | * | ÷ | NC_000964 | 161512–164866 | 165465–164903 | 38–3954 | 8 [7] | [5] 8 | [rrnI‑16S]–[rrnI‑23S] | [rrnI‑16S],[rrnI‑23S] |
| * | * | ÷ | NC_000964 | 166715–166766 | 171084–170392 | 3627–4370 | 8 [7] | [7] 8 | [rrnH‑16S]–[rrnH‑23S] | [rrnH‑16S],[rrnH‑23S] |
| * | * | ÷ | NC_000964 | 1769908 | 1868374 | 98467 | 8 [7] | [0] 30 | spoVS–[ymzA] | spoVS,tdh,kbl,miaB,ricA,cotE,mutS,mutL,ymzD,ymcC,pksA,pksB,BSU_17099,pksC,pksD,pksE,acpK,pksF,pksG,pksH,pksI,pksJ,pksL,pksM,pksN,pksR,pksS,ymzB,ymaE,aprX,pghC,ymaD,ebrB,ebrA,ymaG,ymaF,miaA,hfq,ymzC,[ymzA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000964 | 1868375 = | 0 (0.000) | 25 (0.590) +36 bp |
24/412 | 0.8 | 59.5% | intergenic (+1/‑242) | ymzA/nrdI | hypothetical protein/co‑factor of ribonucleotide diphosphate reductase |
| ? | NC_000964 | 3788113 = | 40 (0.800) | intergenic (‑110/+313) | atpI/upp | ATP synthase (subunit i)/uracil phosphoribosyltransferase | |||||