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 |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356978 | 357568 | 591 | 4 [1] | [1] 4 | lacA | galactoside O‑acetyltransferase |
| * | * | ÷ | NZ_CP009273 | 578974 | 579052 | 79 | 2 [1] | [1] 3 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 724884 | 724949 | 66 | 6 [1] | [1] 2 | ybfA/rhsC | YbfA family protein/rhs element protein RhsC |
| * | * | ÷ | NZ_CP009273 | 905148 | 905178 | 31 | 2 [1] | [1] 2 | poxB | ubiquinone‑dependent pyruvate dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 982647 | 982746 | 100 | 2 [1] | [1] 2 | ompF/asnS | porin OmpF/asparagine‑‑tRNA ligase |
| * | * | ÷ | NZ_CP009273 | 1059487 | 1059495 | 9 | 3 [1] | [0] 5 | [yccE] | [yccE] |
| * | * | ÷ | NZ_CP009273 | 1192981 | 1192995 | 15 | 2 [1] | [1] 2 | [ymfD]–[BW25113_RS05920] | [ymfD],[BW25113_RS05920] |
| * | * | ÷ | NZ_CP009273 | 1267275 | 1267311 | 37 | 3 [1] | [1] 2 | [chaA] | [chaA] |
| * | * | ÷ | NZ_CP009273 | 1521872 | 1521883 | 12 | 6 [0] | [1] 2 | yncH/BW25113_RS07645 | YncH family protein/RHS repeat protein |
| * | * | ÷ | NZ_CP009273 | 1524287 | 1524301 | 15 | 2 [1] | [0] 2 | BW25113_RS07645/BW25113_RS26145 | RHS repeat protein/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1566410 | 1566467 | 58 | 2 [1] | [1] 2 | gadB/pqqL | glutamate decarboxylase/insulinase family protein |
| * | * | ÷ | NZ_CP009273 | 2185829 | 2185914 | 86 | 2 [1] | [1] 3 | yehD/yehE | fimbrial protein/YehE family protein |
| * | * | ÷ | NZ_CP009273 | 2300322 | 2300381 | 60 | 2 [0] | [1] 8 | mqo/yojI | malate dehydrogenase (quinone)/microcin J25 efflux ABC transporter YojI |
| * | * | ÷ | NZ_CP009273 | 2491900 | 2491920 | 21 | 2 [1] | [0] 2 | alaC/ypdA | alanine transaminase/two‑component system sensor histidine kinase YpdA |
| * | * | ÷ | NZ_CP009273 | 2768173 | 2768186 | 14 | 2 [1] | [1] 2 | BW25113_RS13770 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2897119 | 2897128 | 10 | 2 [0] | [1] 2 | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | * | ÷ | NZ_CP009273 | 3798196 | 3798236 | 41 | 5 [1] | [0] 2 | rfaS | LPS core biosynthesis protein RfaS |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 40 (1.890) | 22/166 | 0.1 | NA | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | NA (NA) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 3 (0.140) | 14 (0.820) | 11/134 | 0.4 | 83.8% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 3 (0.180) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 2 (0.090) | 15 (0.880) | 12/134 | 0.3 | 86.7% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 3 (0.180) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 1972747 = | 0 (0.000) | 9 (0.450) | 5/156 | 1.3 | 58.1% | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | 2095231 = | 13 (0.650) | intergenic (‑1/+145) | wbbL/BW25113_RS10605 | N‑acetylglucosaminyl‑diphospho‑decaprenol L‑rhamnosyltransferase WbbL/IS5‑like element IS5 family transposase | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 21 (0.990) | 14/166 | 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) | 9 (0.480) | 8/148 | 0.7 | 60.7% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 9 (0.480) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 4532507 | 3 (0.140) | 8 (0.420) | 6/148 | 1.0 | 57.8% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 9 (0.480) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||