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 |
| Marginal read alignment evidence (highest frequency 20 of 320 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,586 | 0 | A | T | 53.3% | 7.8 / 18.7 | 18 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 4,612,067 | 0 | A | G | 41.0% | 105.9 / 39.2 | 79 | E161G (GAG→GGG) | yjjJ | type II toxin‑antitoxin system HipA family toxin YjjJ |
| * | NZ_CP009273 | 4,612,072 | 0 | A | G | 40.5% | 117.7 / 29.7 | 79 | N163D (AAT→GAT) | yjjJ | type II toxin‑antitoxin system HipA family toxin YjjJ |
| * | NZ_CP009273 | 4,036,390 | 0 | A | G | 39.2% | 76.1 / 11.8 | 51 | N206D (AAT→GAT) | srkA | stress response kinase SrkA |
| * | NZ_CP009273 | 748,581 | 0 | T | A | 39.2% | 111.8 / 30.7 | 74 | intergenic (‑330/+60) | ybgD/gltA | fimbrial protein/citrate synthase |
| * | NZ_CP009273 | 2,145,167 | 0 | G | T | 39.1% | 32.1 / 10.3 | 46 | intergenic (+40/+25) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
| * | NZ_CP009273 | 4,326,718 | 0 | T | A | 38.1% | 115.3 / 38.7 | 84 | Y44F (TAT→TTT) | adiC | arginine/agmatine antiporter |
| * | NZ_CP009273 | 2,897,051 | 0 | C | A | 37.6% | 189.7 / 48.2 | 101 | intergenic (+318/+1055) | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NZ_CP009273 | 2,326,302 | 0 | A | G | 36.8% | 132.9 / 32.8 | 87 | pseudogene (1490/4515 nt) | BW25113_RS11635 | alpha‑2‑macroglobulin family protein |
| * | NZ_CP009273 | 3,738,854 | 0 | C | T | 36.7% | 78.8 / 13.3 | 49 | R231C (CGC→TGC) | yiaN | 2,3‑diketo‑L‑gulonate transporter large permease YiaN |
| * | NZ_CP009273 | 1,995,392 | 0 | G | A | 36.1% | 131.9 / 32.8 | 83 | intergenic (‑122/+199) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 2,145,111 | 0 | C | A | 35.4% | 107.9 / 16.5 | 48 | A149E (GCA→GAA) | yegJ | DUF2314 domain‑containing protein |
| * | NZ_CP009273 | 748,577 | 0 | C | A | 35.1% | 138.5 / 19.3 | 77 | intergenic (‑326/+64) | ybgD/gltA | fimbrial protein/citrate synthase |
| * | NZ_CP009273 | 1,995,399 | 0 | A | C | 35.0% | 162.7 / 20.1 | 80 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 1,009,484 | 0 | A | G | 34.4% | 157.9 / 33.8 | 90 | D257G (GAT→GGT) | pqiB | intermembrane transport protein PqiB |
| * | NZ_CP009273 | 981,173 | 0 | T | G | 34.2% | 165.5 / 17.8 | 79 | intergenic (‑8/+177) | aspC/ompF | aspartate transaminase/porin OmpF |
| * | NZ_CP009273 | 107,682 | 0 | T | G | 33.7% | 176.9 / 17.6 | 90 | V51G (GTG→GGG) | mutT | 8‑oxo‑dGTP diphosphatase MutT |
| * | NZ_CP009273 | 1,009,479 | 0 | T | G | 33.3% | 187.0 / 16.5 | 90 | G255G (GGT→GGG) | pqiB | intermembrane transport protein PqiB |
| * | NZ_CP009273 | 3,941,210 | 0 | C | T | 33.3% | 135.5 / 27.2 | 72 | E40K (GAA→AAA) | hdfR | HTH‑type transcriptional regulator HdfR |
| * | NZ_CP009273 | 4,419,801 | 0 | T | G | 33.3% | 231.2 / 18.3 | 102 | L41V (TTG→GTG) | cycA | D‑serine/D‑alanine/glycine transporter |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 4532507 | 121 (1.160) | 10 (0.100) | 10/474 | 13.4 | 8.5% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 98 (0.980) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | 4532499 = | 123 (1.180) | 9 (0.090) | 9/474 | 14.0 | 7.6% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 99 (0.990) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 540775 | 106 (1.020) | 4 (0.040) | 4/468 | 17.4 | 3.8% | coding (1045/1050 nt) | allD | ureidoglycolate dehydrogenase |
| ? | NZ_CP009273 | = 540763 | 101 (1.020) | intergenic (‑15/+7) | allC/allD | allantoate deiminase/ureidoglycolate dehydrogenase | |||||
| * | ? | NZ_CP009273 | = 3750037 | 102 (0.980) | 4 (0.040) | 4/484 | 17.7 | 4.0% | coding (1151/1152 nt) | yiaY | L‑threonine dehydrogenase |
| ? | NZ_CP009273 | = 3750053 | 91 (0.890) | coding (1135/1152 nt) | yiaY | L‑threonine dehydrogenase | |||||
| * | ? | NZ_CP009273 | = 2722744 | 92 (0.890) | 3 (0.030) | 3/468 | 18.3 | 3.0% | noncoding (60/76 nt) | BW25113_RS13530 | tRNA‑Glu |
| ? | NZ_CP009273 | 4199773 = | 106 (1.070) | noncoding (72/76 nt) | BW25113_RS20795 | tRNA‑Glu | |||||
| * | ? | NZ_CP009273 | = 2722744 | 92 (0.890) | 3 (0.030) | 3/468 | 18.3 | 3.2% | noncoding (60/76 nt) | BW25113_RS13530 | tRNA‑Glu |
| ? | NZ_CP009273 | 3936866 = | 92 (0.930) | noncoding (72/76 nt) | BW25113_RS19525 | tRNA‑Glu | |||||
| * | ? | NZ_CP009273 | = 1171385 | 111 (1.070) | 3 (0.030) | 3/468 | 18.3 | 2.8% | coding (503/1200 nt) | lolC | lipoprotein‑releasing ABC transporter permease subunit LolC |
| ? | NZ_CP009273 | = 1171373 | 103 (1.040) | coding (491/1200 nt) | lolC | lipoprotein‑releasing ABC transporter permease subunit LolC | |||||
| * | ? | NZ_CP009273 | = 3024757 | 116 (1.120) | 3 (0.030) | 3/478 | 18.5 | 2.6% | coding (32/1449 nt) | uacT | urate/proton symporter UacT |
| ? | NZ_CP009273 | = 3024779 | 114 (1.130) | coding (54/1449 nt) | uacT | urate/proton symporter UacT | |||||
| * | ? | NZ_CP009273 | = 107913 | 108 (1.040) | 3 (0.030) | 3/482 | 18.6 | 2.8% | coding (383/390 nt) | mutT | 8‑oxo‑dGTP diphosphatase MutT |
| ? | NZ_CP009273 | = 107931 | 104 (1.020) | intergenic (+11/+205) | mutT/yacG | 8‑oxo‑dGTP diphosphatase MutT/DNA gyrase inhibitor YacG | |||||
| * | ? | NZ_CP009273 | = 2064735 | 113 (1.090) | 3 (0.030) | 3/488 | 18.7 | 2.7% | intergenic (+43/‑285) | BW25113_RS10440/agn43 | GTPase family protein/autotransporter adhesin Ag43 |
| ? | NZ_CP009273 | = 2064750 | 107 (1.040) | intergenic (+58/‑270) | BW25113_RS10440/agn43 | GTPase family protein/autotransporter adhesin Ag43 | |||||