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 | 49,791 | G→A | intergenic (+160/‑32) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 1,613,627 | T→A | V84E (GTG→GAG) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| MC JC | 3,631,242 | Δ66 bp | coding (241‑306/1500 nt) | pitA → | inorganic phosphate transporter PitA |
| RA | 4,594,167 | C→T | S64F (TCT→TTT) | bglJ → | DNA‑binding transcriptional activator BglJ |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356981 | 357569 | 589 | 4 [0] | [1] 2 | lacA | galactoside O‑acetyltransferase |
| * | * | ÷ | NZ_CP009273 | 578974 | 579035 | 62 | 2 [1] | [1] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 647544 | 647617 | 74 | 2 [1] | [1] 2 | citC/dpiB | [citrate (pro‑3S)‑lyase] ligase/sensor histidine kinase DpiB |
| * | * | ÷ | NZ_CP009273 | 724403 | 724441 | 39 | 3 [1] | [0] 3 | kdpF/ybfA | K(+)‑transporting ATPase subunit F/YbfA family protein |
| * | * | ÷ | NZ_CP009273 | 968874 | 968888 | 15 | 2 [1] | [0] 2 | elyC/cmoM | envelope biogenesis factor ElyC/tRNA uridine 5‑oxyacetic acid(34) methyltransferase CmoM |
| * | * | ÷ | NZ_CP009273 | 982687 | 982749 | 63 | 3 [1] | [1] 3 | ompF/asnS | porin OmpF/asparagine‑‑tRNA ligase |
| * | * | ÷ | NZ_CP009273 | 1321109 | 1321146 | 38 | 2 [1] | [1] 3 | rluB | 23S rRNA pseudouridine(2605) synthase RluB |
| * | * | ÷ | NZ_CP009273 | 1363732 | 1363749 | 18 | 5 [0] | [1] 2 | pspD | phage shock protein PspD |
| * | * | ÷ | NZ_CP009273 | 1459458 | 1459502 | 45 | 3 [0] | [1] 2 | [BW25113_RS25580] | [BW25113_RS25580] |
| * | * | ÷ | NZ_CP009273 | 1720020 | 1720051 | 32 | 2 [1] | [1] 2 | ydhL | DUF1289 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1783307 | 1783314 | 8 | 3 [0] | [1] 2 | aroH | 3‑deoxy‑7‑phosphoheptulonate synthase AroH |
| * | * | ÷ | NZ_CP009273 | 2027379 | 2027421 | 43 | 2 [1] | [1] 2 | drpB/ompC | cell division protein DrpB/porin OmpC |
| * | * | ÷ | NZ_CP009273 | 2222527 | 2222557 | 31 | 2 [1] | [0] 2 | [yohP] | [yohP] |
| * | * | ÷ | NZ_CP009273 | 2337769 | 2337796 | 28 | 2 [0] | [1] 3 | yfaL/nrdA | AIDA‑I family autotransporter adhesin YfaL/EhaC/ribonucleoside‑diphosphate reductase subunit alpha |
| * | * | ÷ | NZ_CP009273 | 3260533 | 3260568 | 36 | 2 [1] | [1] 2 | tdcA/tdcR | transcriptional regulator TdcA/transcriptional activator TdcR |
| * | * | ÷ | NZ_CP009273 | 3354472 | 3354481 | 10 | 2 [1] | [1] 3 | gltD/gltF | glutamate synthase subunit GltD/DUF1120 domain‑containing protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 19797 = | NA (NA) | 15 (0.700) | 11/162 | 0.5 | 83.5% | intergenic (‑2/+14) | BW25113_RS25960/BW25113_RS00100 | fimbrial family protein/IS1‑like element IS1A family transposase |
| ? | NZ_CP009273 | = 2808953 | 3 (0.140) | coding (846/1557 nt) | gshA | glutamate‑‑cysteine ligase | |||||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 48 (2.230) | 21/164 | 0.1 | 62.3% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 29 (1.350) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 0 (0.000) | 14 (0.810) | 12/132 | 0.3 | 84.9% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 5 (0.290) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 0 (0.000) | 11 (0.630) | 9/132 | 0.5 | 81.5% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 5 (0.290) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 14 (0.660) | 8/162 | 0.8 | 100% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 0 (0.000) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 22 (1.020) | 16/164 | 0.3 | 100% | intergenic (‑297/‑483) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | = 2283592 | NA (NA) | intergenic (‑68/‑387) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP | |||||
| * | ? | NZ_CP009273 | 2808944 = | 2 (0.090) | 22 (1.020) | 15/164 | 0.3 | 91.7% | coding (855/1557 nt) | gshA | glutamate‑‑cysteine ligase |
| ? | NZ_CP009273 | 3576788 = | NA (NA) | coding (391/417 nt) | BW25113_RS17825 | YrhA family protein | |||||
| * | ? | NZ_CP009273 | 4532499 = | 5 (0.230) | 13 (0.680) | 9/146 | 0.6 | 57.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 15 (0.780) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 5 (0.230) | 6 (0.310) | 6/146 | 1.0 | 38.1% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 15 (0.780) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||