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 | 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 | 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 | 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 | 2,276,476 | A→T | L316I (TTA→ATA) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,495 | G→T | G309G (GGC→GGA) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,498 | A→T | V308V (GTT→GTA) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,501 | G→A | D307D (GAC→GAT) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,504 | A→G | Y306Y (TAT→TAC) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,510 | G→A | G304G (GGC→GGT) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,513 | T→A | V303V (GTA→GTT) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,516 | C→T | G302G (GGG→GGA) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,276,534 | G→A | D296D (GAC→GAT) | yokI ← | putative RNase; phage SPbeta |
| RA | 2,277,898 | C→G | E61Q (GAG→CAG) | yokH ← | conserved protein of unknown function; phage SPbeta |
| RA | 2,277,907 | A→T | S58T (TCC→ACC) | yokH ← | conserved protein of unknown function; phage SPbeta |
| RA | 2,277,960 | G→T | P40Q (CCG→CAG) | yokH ← | conserved protein of unknown function; phage SPbeta |
| RA | 2,277,968 | T→A | T37T (ACA→ACT) | yokH ← | conserved protein of unknown function; phage SPbeta |
| RA | 2,433,097 | A→G | intergenic (‑227/‑40) | sipS ← / → ypzC | type I signal peptidase/hypothetical protein |
| RA | 2,448,692 | C→T | E264K (GAA→AAA) | ripX ← | site‑specific tyrosine recombinase for chromosome partitioning |
| 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 | 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 | 161207–161236 | 161416–161301 | 66–210 | 2 [1] | [1] 2 | rrnI‑16S | ribosomal RNA‑16S |
| * | * | ÷ | NC_000964 | 166776 | 170144–170066 | 3291–3369 | 2 [1] | [1] 2 | [rrnH‑16S]–[rrnH‑23S] | [rrnH‑16S],[rrnH‑23S] |
| * | * | ÷ | NC_000964 | 170259–171065 | 171065 | 1–807 | 2 [1] | [0] 2 | rrnH‑23S | ribosomal RNA‑23S |
| * | * | ÷ | NC_000964 | 171590–171678 | 176085–172535 | 858–4496 | 2 [0] | [1] 2 | [rrnG‑16S]–[rrnG‑23S] | [rrnG‑16S],[rrnG‑23S] |
| * | * | ÷ | NC_000964 | 2055521 | 2055603 | 83 | 2 [1] | [1] 2 | xynA/yozV | secreted endo‑1,4‑beta‑xylanase/putative phage protein; putative defective prophage 6 |
| * | * | ÷ | NC_000964 | 2276620 | 2277845 | 1226 | 3 [1] | [1] 2 | [yokI]–[yokH] | [yokI],[yokH] |
| * | * | ÷ | NC_000964 | 2433137 | 2435099 | 1963 | 4 [0] | [1] 2 | [ypzC]–[ypzD] | [ypzC],ypzJ,ypuB,[ypzD] |
| * | * | ÷ | NC_000964 | 2435347 | 2437428 | 2082 | 2 [1] | [0] 2 | ppiB–[lysA] | ppiB,ypuA,[lysA] |
| * | * | ÷ | NC_000964 | 2437591 | 2441925 | 4335 | 2 [0] | [0] 2 | [lysA]–[spoVAC] | [lysA],spoVAF,spoVAEA,spoVAEB,spoVAD,[spoVAC] |
| * | * | ÷ | NC_000964 | 2442094 | 2447010 | 4917 | 2 [0] | [1] 2 | [spoVAC]–[pupG] | [spoVAC],spoVAB,spoVAA,sigF,spoIIAB,spoIIAA,dacF,[pupG] |
| * | * | ÷ | NC_000964 | 2447121 | 2448422 | 1302 | 2 [1] | [0] 2 | [pupG]–[deoB] | [pupG],[deoB] |