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 |
| JC | 61,712 | Δ11 bp | coding (1543‑1553/2907 nt) | rapA ← | RNA polymerase‑binding ATPase and RNAP recycling factor |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 458,790 | IS186 (+) +6 bp :: Δ1 bp | intergenic (+90/‑93) | clpX → / → lon | ATP‑dependent Clp protease ATP‑binding subunit ClpX/Lon protease |
| RA | 485,798 | G→A | R13H (CGC→CAC) | acrR → | DNA‑binding transcriptional repressor AcrR |
| RA | 803,662 | C→A | L54I (CTT→ATT) | ybhJ → | putative hydratase YbhJ |
| JC | 1,619,100 | Δ20 bp | intergenic (‑192/‑1) | marC ← / → marR | inner membrane protein MarC/DNA‑binding transcriptional repressor MarR |
| RA | 1,905,761 | G→A | G25D (GGT→GAT) | mntP → | Mn(2(+)) exporter |
| JC JC | 1,939,258 | IS5 (+) +4 bp | coding (933‑936/972 nt) | lpxM ← | myristoyl‑acyl carrier protein‑dependent acyltransferase |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,039,253 | C→A | L100I (CTT→ATT) | yedX → | hydroxyisourate hydrolase/transthyretin‑related protein |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| MC JC | 3,815,859 | Δ82 bp | [rph] | [rph] | |
| RA | 4,390,754 | G→T | A252A (GCC→GCA) | rsgA ← | ribosome small subunit‑dependent GTPase A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 164569 | 164598 | 30 | 5 [1] | [3] 4 | hrpB/mrcB | putative ATP‑dependent RNA helicase HrpB/peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcB |
| * | * | ÷ | NC_000913 | 2302669 | 2302695 | 27 | 5 [2] | [1] 7 | napA | periplasmic nitrate reductase subunit NapA |
| * | * | ÷ | NC_000913 | 3423713–3424234 | 3424588–3424238 | 5–876 | 5 [2] | [0] 6 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 4296116–4296380 | 4296392 | 13–277 | 4 [3] | [3] 7 | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 42 (1.070) | 24/126 | 0.1 | 67.7% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 1943189 | 20 (0.510) | coding (528/756 nt) | znuC | Zn(2(+)) ABC transporter ATP binding subunit | |||||
| * | ? | NC_000913 | 1207790 = | 31 (0.780) | 10 (0.340) | 10/96 | 0.7 | 24.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 37 (1.240) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 50 (1.340) | 24/120 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1943181 = | 17 (0.430) | 37 (0.950) | 16/126 | 0.5 | 68.5% | coding (520/756 nt) | znuC | Zn(2(+)) ABC transporter ATP binding subunit |
| ? | NC_000913 | = 1979270 | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 4542690 | 39 (0.980) | 15 (0.440) | 13/110 | 0.5 | 25.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 53 (1.550) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||