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 77 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 766,353 | 0 | T | G | 70.6% | 2.8 / 10.9 | 17 | intergenic (+286/‑561) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 4,558,321 | 0 | T | G | 69.0% | 5.2 / 22.3 | 30 | T6P (ACC→CCC) | mdtM | multidrug efflux MFS transporter MdtM |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 68.8% | ‑1.5 / 10.3 | 16 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 766,356 | 0 | A | G | 64.7% | 2.5 / 11.8 | 17 | intergenic (+289/‑558) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 2,860,603 | 0 | A | T | 64.7% | ‑4.8 / 27.7 | 34 | V103E (GTA→GAA) | rpoS | RNA polymerase sigma factor RpoS |
| * | NZ_CP009273 | 653,356 | 0 | A | C | 62.5% | 8.0 / 11.9 | 16 | G13G (GGT→GGG) | crcB | fluoride efflux transporter CrcB |
| * | NZ_CP009273 | 1,673,561 | 0 | A | C | 61.5% | 10.8 / 20.7 | 26 | Y293S (TAC→TCC) | ydgH | DUF1471 family protein YdgH |
| * | NZ_CP009273 | 2,141,214 | 0 | T | G | 61.5% | 7.0 / 10.2 | 13 | G20G (GGT→GGG) | yegD | molecular chaperone |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 60.7% | ‑1.7 / 26.4 | 28 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,430,446 | 0 | A | C | 60.0% | 7.3 / 12.5 | 15 | G235G (GGT→GGG) | ompN | porin OmpN |
| * | NZ_CP009273 | 2,380,357 | 0 | A | T | 60.0% | 14.1 / 38.0 | 30 | intergenic (+47/‑56) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 4,558,329 | 0 | C | A | 59.3% | ‑1.8 / 29.4 | 27 | R3L (CGT→CTT) | mdtM | multidrug efflux MFS transporter MdtM |
| * | NZ_CP009273 | 2,380,331 | 0 | T | G | 58.6% | 25.9 / 30.7 | 29 | intergenic (+21/‑82) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,370,639 | 0 | C | A | 58.3% | 3.1 / 12.4 | 12 | A145S (GCC→TCC) | menH | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 57.9% | 4.4 / 44.4 | 38 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 57.9% | 7.5 / 44.4 | 38 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,089,571 | 0 | A | G | 57.7% | 14.9 / 30.9 | 26 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 595,035 | 0 | T | G | 57.1% | ‑3.7 / 10.1 | 14 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 832,212 | 0 | T | G | 57.1% | 1.0 / 11.4 | 14 | F136V (TTT→GTT) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 57.1% | 24.3 / 32.7 | 28 | T275P (ACC→CCC) | htpX | protease HtpX |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 3375198 = | 31 (1.000) | 5 (0.180) | 5/150 | 1.7 | 15.5% | coding (1097/1368 nt) | degQ | serine endoprotease DegQ |
| ? | NZ_CP009273 | 3375228 = | 27 (0.970) | coding (1127/1368 nt) | degQ | serine endoprotease DegQ | |||||
| * | ? | NZ_CP009273 | 4569286 = | 35 (1.130) | 4 (0.140) | 4/152 | 1.9 | 11.3% | intergenic (‑132/+30) | mcrB/symE | 5‑methylcytosine‑specific restriction endonuclease subunit McrB/endoribonuclease SymE |
| ? | NZ_CP009273 | 4569307 = | 31 (1.100) | intergenic (‑153/+9) | mcrB/symE | 5‑methylcytosine‑specific restriction endonuclease subunit McrB/endoribonuclease SymE | |||||
| * | ? | NZ_CP009273 | = 3686927 | 35 (1.130) | 4 (0.140) | 4/152 | 1.9 | 9.6% | coding (1670/2619 nt) | bcsA | UDP‑forming cellulose synthase catalytic subunit |
| ? | NZ_CP009273 | = 3686958 | 44 (1.560) | coding (1639/2619 nt) | bcsA | UDP‑forming cellulose synthase catalytic subunit | |||||
| * | ? | NZ_CP009273 | = 3219546 | 44 (1.420) | 4 (0.140) | 4/150 | 1.9 | 8.9% | intergenic (+16/‑47) | ebgC/ygjI | beta‑galactosidase subunit beta/amino acid permease |
| ? | NZ_CP009273 | = 3219551 | 43 (1.550) | intergenic (+21/‑42) | ebgC/ygjI | beta‑galactosidase subunit beta/amino acid permease | |||||
| * | ? | NZ_CP009273 | 42989 = | 106 (3.410) | 4 (0.150) | 4/148 | 1.9 | 4.3% | coding (587/771 nt) | fixA | electron transfer flavoprotein FixA |
| ? | NZ_CP009273 | 43085 = | 85 (3.100) | coding (683/771 nt) | fixA | electron transfer flavoprotein FixA | |||||
| * | ? | NZ_CP009273 | = 35715 | 82 (2.640) | 4 (0.140) | 4/152 | 1.9 | 5.0% | coding (448/786 nt) | caiD | crotonobetainyl‑CoA hydratase |
| ? | NZ_CP009273 | = 35813 | 77 (2.740) | coding (350/786 nt) | caiD | crotonobetainyl‑CoA hydratase | |||||
| * | ? | NZ_CP009273 | = 3046473 | 16 (0.510) | 3 (0.110) | 3/150 | 2.2 | 11.1% | coding (405/1179 nt) | ubiH | 2‑octaprenyl‑6‑methoxyphenyl hydroxylase |
| ? | NZ_CP009273 | = 3046536 | 34 (1.230) | coding (342/1179 nt) | ubiH | 2‑octaprenyl‑6‑methoxyphenyl hydroxylase | |||||
| * | ? | NZ_CP009273 | = 3001820 | 27 (0.870) | 3 (0.110) | 3/152 | 2.2 | 9.6% | coding (952/1197 nt) | dpaL | diaminopropionate ammonia‑lyase |
| ? | NZ_CP009273 | = 3001851 | 32 (1.140) | coding (983/1197 nt) | dpaL | diaminopropionate ammonia‑lyase | |||||
| * | ? | NZ_CP009273 | 726861 = | 23 (0.740) | 3 (0.110) | 3/152 | 2.2 | 9.9% | coding (1823/4194 nt) | rhsC | rhs element protein RhsC |
| ? | NZ_CP009273 | 3614426 = | 34 (1.210) | coding (1875/4236 nt) | rhsB | rhs element protein RhsB | |||||
| * | ? | NZ_CP009273 | 297400 = | 34 (1.090) | 3 (0.110) | 3/152 | 2.2 | 10.8% | coding (199/957 nt) | paoB | aldehyde oxidoreductase FAD‑binding subunit PaoB |
| ? | NZ_CP009273 | 297468 = | 19 (0.680) | coding (131/957 nt) | paoB | aldehyde oxidoreductase FAD‑binding subunit PaoB | |||||