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 | 49,765 | C→T | intergenic (+134/‑58) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 49,884 | C→A | P21Q (CCG→CAG) | folA → | type 3 dihydrofolate reductase |
| MC JC | 1,613,631 | Δ3 bp | coding (255‑257/435 nt) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 3,632,461 | T→G | L487R (CTT→CGT) | pitA → | inorganic phosphate transporter PitA |
| RA | 3,754,231 | G→T | R127S (CGC→AGC) | selA ← | L‑seryl‑tRNA(Sec) selenium transferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 153689 | 153723 | 35 | 4 [1] | [0] 2 | yadN/folK | fimbrial protein/2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine diphosphokinase |
| * | * | ÷ | NZ_CP009273 | 356981 | 357570 | 590 | 5 [0] | [1] 2 | lacA | galactoside O‑acetyltransferase |
| * | * | ÷ | NZ_CP009273 | 647494 | 647554 | 61 | 2 [1] | [1] 2 | citC/dpiB | [citrate (pro‑3S)‑lyase] ligase/sensor histidine kinase DpiB |
| * | * | ÷ | NZ_CP009273 | 729529 | 729534 | 6 | 2 [0] | [1] 2 | BW25113_RS03630 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 869145 | 869174 | 30 | 2 [1] | [1] 3 | pdeI | EAL domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1098970 | 1099001 | 32 | 2 [0] | [1] 2 | csgD/csgB | biofilm master transcriptional regulator CsgD/curli minor subunit CsgB |
| * | * | ÷ | NZ_CP009273 | 1207491 | 1207538 | 48 | 2 [1] | [0] 2 | iraM/BW25113_RS25985 | anti‑adapter protein IraM/protein YmgK |
| * | * | ÷ | NZ_CP009273 | 1207612 | 1207655 | 44 | 2 [0] | [1] 3 | iraM/BW25113_RS25985 | anti‑adapter protein IraM/protein YmgK |
| * | * | ÷ | NZ_CP009273 | 1210439 | 1210483 | 45 | 2 [1] | [1] 2 | bluF | blue light‑responsive regulator BluF |
| * | * | ÷ | NZ_CP009273 | 1225875 | 1225927 | 53 | 2 [0] | [1] 3 | hlyE/umuD | hemolysin HlyE/translesion error‑prone DNA polymerase V autoproteolytic subunit |
| * | * | ÷ | NZ_CP009273 | 1314765 | 1314802 | 38 | 3 [1] | [1] 2 | trpD | bifunctional anthranilate synthase glutamate amidotransferase component TrpG/anthranilate phosphoribosyltransferase TrpD |
| * | * | ÷ | NZ_CP009273 | 1363740 | 1363764 | 25 | 2 [1] | [0] 2 | pspD | phage shock protein PspD |
| * | * | ÷ | NZ_CP009273 | 1459374 | 1459483 | 110 | 4 [1] | [1] 3 | [BW25113_RS25580] | [BW25113_RS25580] |
| * | * | ÷ | NZ_CP009273 | 1524460 | 1524472 | 13 | 2 [1] | [0] 2 | BW25113_RS26145 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1631964 | 1631993 | 30 | 2 [0] | [0] 4 | gnsB | addiction module toxin, GnsA/GnsB family |
| * | * | ÷ | NZ_CP009273 | 1836615 | 1836615 | 1 | 2 [0] | [0] 2 | ynjH/gdhA | YnjH family protein/NADP‑specific glutamate dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 1864668 | 1864731 | 64 | 4 [1] | [1] 5 | cdgI | GGDEF domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1888062 | 1888087 | 26 | 2 [1] | [0] 2 | yoaB/yoaC | RidA family protein/DUF1889 family protein |
| * | * | ÷ | NZ_CP009273 | 2004892 | 2004900 | 9 | 2 [1] | [1] 2 | BW25113_RS10120 | DUF5503 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 2449501 | 2449508 | 8 | 2 [0] | [0] 2 | yfcV/sixA | fimbrial protein/phosphohistidine phosphatase SixA |
| * | * | ÷ | NZ_CP009273 | 2462903 | 2462919 | 17 | 2 [1] | [0] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2897143 | 2897193 | 51 | 2 [1] | [1] 2 | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | * | ÷ | NZ_CP009273 | 2988543 | 2988563 | 21 | 2 [1] | [0] 2 | BW25113_RS14850/BW25113_RS26010 | response regulator transcription factor/hypothetical protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 44 (1.860) | 26/164 | 0.1 | 50.6% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 43 (1.820) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 16 (0.680) | 3 (0.160) | 3/132 | 1.6 | 23.2% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 7 (0.370) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 10 (0.430) | 8/162 | 0.9 | 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) | 43 (1.820) | 23/164 | 0.1 | 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 | 4532499 = | 3 (0.130) | 13 (0.620) | 9/146 | 0.7 | 77.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 5 (0.240) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.130) | 9 (0.430) | 7/146 | 0.9 | 70.1% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 5 (0.240) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||