mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 35 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 1,097,580 | 0 | C | T | 41.3% | 15.7 / 52.3 | 46 | intergenic (+329/+45) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 29,496 | 0 | T | A | 35.7% | 125.8 / 37.3 | 70 | intergenic (+301/‑155) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 2,004,055 | 0 | A | C | 31.2% | 167.8 / 14.2 | 77 | intergenic (‑129/+192) | Y75_RS10125/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NC_007779 | 29,486 | 0 | C | A | 30.0% | 190.2 / 22.0 | 70 | intergenic (+291/‑165) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 3,205,091 | 0 | C | T | 28.8% | 92.3 / 30.0 | 59 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_007779 | 3,401,314 | 0 | T | C | 28.0% | 163.1 / 21.2 | 75 | D625G (GAT→GGT) | csrD | RNase E specificity factor CsrD |
| * | NC_007779 | 1,385,436 | 0 | G | A | 27.1% | 186.6 / 25.0 | 85 | F80F (TTC→TTT) | Y75_RS06960 | LacI family transcriptional regulator |
| * | NC_007779 | 1,097,540 | 0 | C | A | 26.7% | 98.3 / 23.5 | 47 | intergenic (+289/+85) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 3,205,102 | 0 | C | A | 26.7% | 118.1 / 11.7 | 60 | intergenic (‑190/‑17) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_007779 | 3,475,533 | 0 | C | T | 26.7% | 183.6 / 30.9 | 90 | E10K (GAA→AAA) | fabR | HTH‑type transcriptional repressor FabR |
| * | NC_007779 | 753,547 | 0 | T | A | 26.5% | 189.5 / 26.5 | 83 | intergenic (‑330/+60) | Y75_RS03720/gltA | type 1 fimbrial protein/citrate (Si)‑synthase |
| * | NC_007779 | 4,609,024 | 0 | C | T | 26.5% | 133.1 / 21.7 | 68 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NC_007779 | 2,488,707 | 0 | C | A | 24.7% | 242.2 / 13.5 | 93 | A27S (GCG→TCG) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 2,188,533 | 0 | T | G | 24.4% | 200.3 / 14.5 | 82 | T35P (ACC→CCC) | thiM | hydroxyethylthiazole kinase |
| * | NC_007779 | 3,974,713 | 0 | G | T | 24.4% | 204.8 / 26.8 | 82 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NC_007779 | 1,974,455 | 0 | G | A | 24.4% | 168.9 / 11.3 | 78 | intergenic (‑50/+95) | tar/cheW | methyl‑accepting chemotaxis protein II/chemotaxis protein CheW |
| * | NC_007779 | 4,291,309 | 0 | T | A | 24.0% | 187.1 / 27.6 | 75 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 2,488,700 | 0 | G | A | 24.0% | 231.3 / 20.8 | 96 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 558,404 | 0 | G | A | 23.1% | 198.3 / 18.0 | 91 | E70K (GAA→AAA) | fimC | type 1 fimbria chaperone FimC |
| * | NC_007779 | 1,246,811 | 0 | G | T | 22.9% | 239.7 / 18.6 | 84 | L25F (TTG→TTT) | Y75_RS06255 | hypothetical protein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_007779 | 4547362 = | 98 (0.880) | 39 (0.360) | 36/478 | 5.7 | 30.1% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | 4547676 = | 87 (0.810) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | = 4547370 | 99 (0.880) | 30 (0.280) | 30/478 | 7.0 | 25.1% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | = 4547666 | 84 (0.780) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | 4400783 = | 121 (1.080) | 3 (0.030) | 3/476 | 19.3 | 2.5% | coding (39/1338 nt) | amiB | N‑acetylmuramoyl‑L‑alanine amidase AmiB |
| ? | NC_007779 | = 4400779 | 118 (1.100) | coding (35/1338 nt) | amiB | N‑acetylmuramoyl‑L‑alanine amidase AmiB | |||||