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 | 49,884 | C→A | P21Q (CCG→CAG) | folA → | type 3 dihydrofolate reductase |
| RA | 806,171 | A→G | N112S (AAT→AGT) | bioF → | 8‑amino‑7‑oxononanoate synthase |
| RA | 1,184,613 | A→T | I207N (ATC→AAC) | phoQ ← | two‑component system sensor histidine kinase PhoQ |
| RA | 1,613,383 | Δ1 bp | coding (7/435 nt) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| RA | 1,743,316 | T→G | V167V (GTA→GTC) | ydhT ← | protein YdhT |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 2,851,887 | G→A | R479H (CGT→CAT) | mutS → | DNA mismatch repair protein MutS |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356981 | 357575 | 595 | 4 [0] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 578967 | 579053 | 87 | 2 [1] | [1] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 1165846 | 1165869 | 24 | 3 [0] | [1] 3 | ldtC/mfd | L,D‑transpeptidase LdtC/transcription‑repair coupling factor |
| * | * | ÷ | NZ_CP009273 | 1193705 | 1193754 | 50 | 2 [1] | [1] 2 | BW25113_RS05920/lit | hypothetical protein/cell death peptidase Lit |
| * | * | ÷ | NZ_CP009273 | 1206611 | 1206649 | 39 | 4 [1] | [1] 2 | [mcrA] | [mcrA] |
| * | * | ÷ | NZ_CP009273 | 1275071 | 1275109 | 39 | 2 [1] | [1] 2 | narK/narG | nitrate transporter NarK/nitrate reductase subunit alpha |
| * | * | ÷ | NZ_CP009273 | 1524588 | 1524598 | 11 | 4 [1] | [0] 2 | BW25113_RS26145 BW25113_RS25600 |
hypothetical protein protein YncO |
| * | * | ÷ | NZ_CP009273 | 1540416 | 1540429 | 14 | 2 [1] | [1] 2 | yddL/yddG | porin/aromatic amino acid efflux DMT transporter YddG |
| * | * | ÷ | NZ_CP009273 | 1566402 | 1566457 | 56 | 2 [0] | [1] 3 | gadB/pqqL | glutamate decarboxylase/insulinase family protein |
| * | * | ÷ | NZ_CP009273 | 1627118 | 1627138 | 21 | 2 [0] | [1] 2 | ydfJ/BW25113_RS25615 | MHS family MFS transporter/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1631452 | 1631471 | 20 | 2 [0] | [1] 3 | ydfO | DUF1398 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1631855 | 1631868 | 14 | 2 [1] | [0] 2 | [gnsB] | [gnsB] |
| * | * | ÷ | NZ_CP009273 | 1631961 | 1632026 | 66 | 2 [1] | [0] 2 | gnsB | addiction module toxin, GnsA/GnsB family |
| * | * | ÷ | NZ_CP009273 | 1652089 | 1652100 | 12 | 4 [1] | [1] 3 | ynfD | DUF1161 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1663817 | 1663894 | 78 | 4 [1] | [1] 2 | [ynfL] | [ynfL] |
| * | * | ÷ | NZ_CP009273 | 1819299 | 1819338 | 40 | 3 [1] | [1] 4 | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | * | ÷ | NZ_CP009273 | 1871767 | 1871806 | 40 | 2 [0] | [1] 3 | [yoaF] | [yoaF] |
| * | * | ÷ | NZ_CP009273 | 1972752 | 1972755 | 4 | 31 [0] | [0] 3 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 2027424 | 2027455 | 32 | 2 [0] | [0] 2 | drpB/ompC | cell division protein DrpB/porin OmpC |
| * | * | ÷ | NZ_CP009273 | 2050222 | 2050275 | 54 | 2 [1] | [0] 2 | amn/yeeN | AMP nucleosidase/YebC/PmpR family DNA‑binding transcriptional regulator |
| * | * | ÷ | NZ_CP009273 | 2097456 | 2097495 | 40 | 2 [1] | [1] 3 | wbbK | glycosyltransferase family 1 protein |
| * | * | ÷ | NZ_CP009273 | 2099619 | 2099677 | 59 | 2 [1] | [0] 2 | wzy | O16 family O‑antigen polymerase |
| * | * | ÷ | NZ_CP009273 | 2185702 | 2185710 | 9 | 2 [0] | [1] 3 | yehD/yehE | fimbrial protein/YehE family protein |
| * | * | ÷ | NZ_CP009273 | 2359192 | 2359248 | 57 | 2 [1] | [0] 3 | ais/arnB | lipopolysaccharide core heptose(II)‑phosphate phosphatase Ais/UDP‑4‑amino‑4‑deoxy‑L‑arabinose aminotransferase |
| * | * | ÷ | NZ_CP009273 | 2462809 | 2462922 | 114 | 3 [1] | [1] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2463685 | 2463753 | 69 | 2 [0] | [0] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2569341 | 2569349 | 9 | 3 [1] | [0] 5 | eutS/maeB | ethanolamine utilization microcompartment protein EutS/NADP‑dependent oxaloacetate‑decarboxylating malate dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 2784450 | 2784454 | 5 | 2 [1] | [1] 11 | lhgO | L‑2‑hydroxyglutarate oxidase |
| * | * | ÷ | NZ_CP009273 | 2897117 | 2897219 | 103 | 2 [1] | [1] 2 | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | * | ÷ | NZ_CP009273 | 3246131 | 3246161 | 31 | 2 [1] | [0] 2 | yhaH/yhaI | DUF805 domain‑containing protein/DUF805 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 3247147 | 3247150 | 4 | 2 [0] | [1] 2 | yhaJ | DNA‑binding transcriptional regulator YhaJ |
| * | * | ÷ | NZ_CP009273 | 3262601 | 3262613 | 13 | 3 [1] | [1] 2 | yhaC | YhaC family protein |
| * | * | ÷ | NZ_CP009273 | 3790427 | 3790465 | 39 | 3 [1] | [1] 2 | waaL | O‑antigen ligase |
| * | * | ÷ | NZ_CP009273 | 3792671 | 3792681 | 11 | 2 [0] | [1] 5 | [waaU] | [waaU] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 56 (2.540) | 25/166 | 0.1 | 55.5% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 45 (2.040) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 9 (0.410) | 12 (0.670) | 8/134 | 0.6 | 72.2% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 2 (0.110) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 9 (0.410) | 5 (0.280) | 5/134 | 1.0 | 51.9% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 2 (0.110) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 1903030 = | 2 (0.090) | 13 (0.590) | 13/166 | 0.4 | 86.7% | intergenic (‑7/‑152) | mgrB/yobH | PhoP/PhoQ regulator MgrB/YobH family protein |
| ? | NZ_CP009273 | = 2063752 | NA (NA) | intergenic (‑91/‑3) | BW25113_RS10425/BW25113_RS10435 | IS3‑like element IS2 family transposase/TonB‑dependent receptor plug domain‑containing protein | |||||
| * | ? | NZ_CP009273 | = 1903035 | 3 (0.140) | 14 (0.640) | 9/164 | 0.7 | 82.5% | intergenic (‑12/‑147) | mgrB/yobH | PhoP/PhoQ regulator MgrB/YobH family protein |
| ? | NZ_CP009273 | 2062423 = | NA (NA) | intergenic (+2/+10) | BW25113_RS24005/BW25113_RS10425 | TonB‑dependent receptor plug domain‑containing protein/IS3‑like element IS2 family transposase | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 31 (1.410) | 15/166 | 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 | 4532499 = | 3 (0.140) | 8 (0.410) | 7/148 | 0.8 | 67.6% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 5 (0.250) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.140) | 7 (0.360) | 7/148 | 0.8 | 64.6% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 5 (0.250) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||