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 80 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 982,950 | 0 | T | G | 62.5% | 6.0 / 16.3 | 17 | intergenic (‑512/+91) | ompF/asnS | porin OmpF/asparagine‑‑tRNA ligase |
| * | NZ_CP009273 | 2,574,621 | 0 | A | G | 53.8% | 1.6 / 13.8 | 13 | K543E (AAA→GAA) | tkt | transketolase |
| * | NZ_CP009273 | 1,129,313 | 0 | A | G | 53.3% | 2.8 / 12.2 | 15 | Q19R (CAG→CGG) | flgF | flagellar basal‑body rod protein FlgF |
| * | NZ_CP009273 | 529,787 | 0 | T | G | 52.4% | 17.5 / 32.3 | 21 | V139G (GTG→GGG) | gcl | glyoxylate carboligase |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 50.8% | 38.5 / 88.8 | 64 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 5,159 | 0 | G | A | 48.3% | 23.5 / 15.2 | 29 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 47.4% | 10.7 / 11.2 | 19 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 45.9% | 131.4 / 52.8 | 110 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 3,659,058 | 0 | T | C | 45.3% | 63.3 / 37.9 | 66 | D38G (GAT→GGT) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 3,549,559 | 0 | G | A | 44.7% | 27.8 / 18.2 | 38 | S217F (TCC→TTC) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NZ_CP009273 | 229,601 | 0 | G | A | 44.4% | 26.8 / 12.2 | 27 | S281F (TCC→TTC) | mltD | murein transglycosylase D |
| * | NZ_CP009273 | 1,976,032 | 0 | G | A | 44.0% | 20.0 / 14.3 | 25 | intergenic (‑164/+3) | otsB/araH | trehalose‑phosphatase/arabinose ABC transporter permease AraH |
| * | NZ_CP009273 | 2,145,089 | 0 | G | A | 43.5% | 19.6 / 10.1 | 23 | E142K (GAA→AAA) | yegJ | DUF2314 domain‑containing protein |
| * | NZ_CP009273 | 349,999 | 0 | T | G | 42.9% | 219.4 / 32.8 | 127 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NZ_CP009273 | 1,976,010 | 0 | C | A | 42.9% | 27.9 / 18.5 | 28 | intergenic (‑142/+25) | otsB/araH | trehalose‑phosphatase/arabinose ABC transporter permease AraH |
| * | NZ_CP009273 | 3,436,636 | 0 | A | C | 41.3% | 77.3 / 11.1 | 46 | V274G (GTA→GGA) | secY | preprotein translocase subunit SecY |
| * | NZ_CP009273 | 3,214,118 | 0 | C | A | 40.5% | 43.0 / 17.2 | 37 | A422A (GCC→GCA) | ygjG | putrescine aminotransferase |
| * | NZ_CP009273 | 1,976,058 | 0 | G | T | 40.0% | 40.9 / 15.0 | 30 | Q322K (CAA→AAA) | araH | arabinose ABC transporter permease AraH |
| * | NZ_CP009273 | 3,583,947 | 0 | T | G | 39.5% | 75.2 / 10.4 | 43 | T109P (ACC→CCC) | ugpA | sn‑glycerol‑3‑phosphate ABC transporter permease UgpA |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 39.4% | 95.2 / 45.8 | 99 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 281585 = | 203 (4.410) | 8 (0.190) | 8/228 | 1.7 | 4.2% | coding (480/1383 nt) | yagG | MFS transporter |
| ? | NZ_CP009273 | 281607 = | 177 (4.120) | coding (502/1383 nt) | yagG | MFS transporter | |||||
| * | ? | NZ_CP009273 | 4377011 = | 56 (1.220) | 4 (0.090) | 4/228 | 2.5 | 7.5% | coding (2177/3324 nt) | mscM | miniconductance mechanosensitive channel MscM |
| ? | NZ_CP009273 | 4377031 = | 46 (1.070) | coding (2157/3324 nt) | mscM | miniconductance mechanosensitive channel MscM | |||||
| * | ? | NZ_CP009273 | = 355974 | 138 (3.000) | 4 (0.100) | 4/222 | 2.5 | 3.1% | coding (272/1155 nt) | cynX | cyanate transporter CynX |
| ? | NZ_CP009273 | = 355978 | 126 (3.010) | coding (276/1155 nt) | cynX | cyanate transporter CynX | |||||
| * | ? | NZ_CP009273 | 290481 = | 177 (3.850) | 3 (0.070) | 3/228 | 2.8 | 1.9% | coding (30/855 nt) | BW25113_RS01425 | hypothetical protein |
| ? | NZ_CP009273 | 290829 = | 137 (3.190) | coding (25/225 nt) | ykgV | helix‑turn‑helix domain‑containing protein | |||||
| * | ? | NZ_CP009273 | = 283583 | 191 (4.150) | 3 (0.070) | 3/230 | 2.8 | 1.5% | coding (1084/1611 nt) | yagH | glycoside hydrolase family 43 protein |
| ? | NZ_CP009273 | = 283644 | 225 (5.190) | coding (1145/1611 nt) | yagH | glycoside hydrolase family 43 protein | |||||
| * | ? | NZ_CP009273 | = 283494 | 162 (3.520) | 3 (0.070) | 3/228 | 2.8 | 1.9% | coding (995/1611 nt) | yagH | glycoside hydrolase family 43 protein |
| ? | NZ_CP009273 | = 283506 | 158 (3.680) | coding (1007/1611 nt) | yagH | glycoside hydrolase family 43 protein | |||||