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 mutation | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 578972 | 579059 | 88 | 4 [2] | [2] 3 | tfaX/appY | pseudogene, DLP12 prophage;Phage or Prophage Related/global transcriptional activator; DLP12 prophage |
| * | * | ÷ | CP009273 | 579537 | 579566 | 30 | 3 [2] | [1] 3 | appY | global transcriptional activator; DLP12 prophage |
| * | * | ÷ | CP009273 | 1164376 | 1164424 | 49 | 4 [2] | [2] 3 | ycfQ/bhsA | repressor for bhsA(ycfR)/biofilm, cell surface and signaling protein |
| * | * | ÷ | CP009273 | 1193104 | 1193268 | 165 | 3 [2] | [2] 3 | ymfE | e14 prophage; putative inner membrane protein |
| * | * | ÷ | CP009273 | 1207529 | 1207611 | 83 | 3 [2] | [2] 3 | iraM/ycgX | RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein |
| * | * | ÷ | CP009273 | 1207668 | 1207724 | 57 | 3 [2] | [2] 3 | iraM/ycgX | RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein |
| * | * | ÷ | CP009273 | 1251469 | 1251516 | 48 | 3 [2] | [2] 3 | ycgV/ychF | putative adhesin/catalase inhibitor protein; ATPase, K+‑dependent, ribosome‑associated |
| * | * | ÷ | CP009273 | 1524423 | 1524471 | 49 | 3 [2] | [0] 4 | ydcD | uncharacterized protein |
| * | * | ÷ | CP009273 | 1631847 | 1632011 | 165 | 3 [2] | [2] 3 | [gnsB] | [gnsB] |
| * | * | ÷ | CP009273 | 2097489 | 2097576 | 88 | 3 [2] | [2] 3 | wbbK | lipopolysaccharide biosynthesis protein |
| * | * | ÷ | CP009273 | 2185818 | 2185950 | 133 | 3 [2] | [2] 3 | yehD/yehE | putative fimbrial‑like adhesin protein/DUF2574 family protein |
| * | * | ÷ | CP009273 | 2463169 | 2463223 | 55 | 4 [2] | [2] 3 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | CP009273 | 2463584 | 2463645 | 62 | 3 [2] | [2] 3 | gtrS | serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage |
| * | * | ÷ | CP009273 | 2897150 | 2897264 | 115 | 3 [2] | [2] 4 | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | * | ÷ | CP009273 | 2985224 | 2985345 | 122 | 6 [2] | [2] 4 | ygeG/ygeH | SycD‑like chaperone family TPR‑repeat‑containing protein/putative transcriptional regulator |
| * | * | ÷ | CP009273 | 3354470 | 3354484 | 15 | 3 [2] | [2] 3 | gltD/gltF | glutamate synthase, 4Fe‑4S protein, small subunit/periplasmic protein |
| * | * | ÷ | CP009273 | 3447189 | 3447207 | 19 | 3 [2] | [2] 3 | gspB | part of gsp divergon involved in type II protein secretion |
| * | * | ÷ | CP009273 | 3797715 | 3797867 | 153 | 3 [2] | [2] 4 | waaS | lipopolysaccharide core biosynthesis protein |
| * | * | ÷ | CP009273 | 3798326 | 3798414 | 89 | 4 [2] | [2] 3 | waaS | lipopolysaccharide core biosynthesis protein |
| * | * | ÷ | CP009273 | 4531422 | 4531540 | 119 | 4 [2] | [2] 3 | fimB/fimE | tyrosine recombinase/inversion of on/off regulator of fimA/tyrosine recombinase/inversion of on/off regulator of fimA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 360104 = | 13 (0.380) | 28 (0.820) | 24/324 | 0.4 | 49.1% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | = 360286 | 45 (1.310) | intergenic (‑220/+375) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor | |||||
| * | ? | CP009273 | 376919 = | NA (NA) | 3 (0.090) | 3/302 | 2.6 | NA | coding (113/366 nt) | insC1 | IS2 repressor TnpA |
| ? | CP009273 | 377307 = | NA (NA) | coding (178/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | 1203246 = | 5 (0.150) | 24 (0.780) | 23/292 | 0.3 | 89.7% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 1 (0.030) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 5 (0.150) | 17 (0.550) | 16/292 | 0.7 | 86.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 1 (0.030) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 1387008 = | 17 (0.500) | 6 (0.180) | 4/314 | 2.4 | 20.9% | coding (761/900 nt) | pgrR | murein peptide degradation regulator |
| ? | CP009273 | 1387230 = | 29 (0.870) | intergenic (+83/‑254) | pgrR/mppA | murein peptide degradation regulator/murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit | |||||
| * | ? | CP009273 | 1413126 = | 35 (1.020) | 12 (0.360) | 6/312 | 1.9 | 24.6% | coding (199/489 nt) | sieB | Rac prophage; phage superinfection exclusion protein |
| ? | CP009273 | 1413206 = | 40 (1.210) | coding (279/489 nt) | sieB | Rac prophage; phage superinfection exclusion protein | |||||
| * | ? | CP009273 | 1444620 = | 17 (0.500) | 5 (0.150) | 4/308 | 2.4 | 30.2% | coding (987/2274 nt) | tynA | tyramine oxidase, copper‑requiring |
| ? | CP009273 | 1444886 = | 7 (0.210) | coding (721/2274 nt) | tynA | tyramine oxidase, copper‑requiring | |||||
| * | ? | CP009273 | = 3615324 | NA (NA) | 4 (0.120) | 4/306 | 2.4 | 100% | coding (2773/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor |
| ? | CP009273 | = 3615424 | 0 (0.000) | coding (2873/4236 nt) | rhsB | Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor | |||||
| * | ? | CP009273 | = 3824404 | 40 (1.170) | 11 (0.340) | 7/302 | 1.7 | 21.7% | coding (588/1710 nt) | yicH | putative inner membrane‑anchored periplasmic AsmA family protein |
| ? | CP009273 | = 3824452 | 42 (1.310) | coding (636/1710 nt) | yicH | putative inner membrane‑anchored periplasmic AsmA family protein | |||||