mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 1196 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,386,862 | 0 | G | A | 62.8% | 32.6 / 88.7 | 87 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 357,890 | 0 | C | A | 59.7% | ‑5.4 / 58.3 | 62 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 354,288 | 0 | T | G | 59.5% | 45.0 / 100.9 | 74 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 501,575 | 0 | A | C | 58.8% | 58.8 / 110.9 | 82 | V555G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 357,880 | 0 | T | C | 57.8% | 30.8 / 87.0 | 64 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 4,604,344 | 0 | C | T | 56.9% | 20.0 / 126.9 | 116 | S62F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 1,356,201 | 0 | T | G | 54.5% | 54.6 / 89.7 | 66 | T304P (ACC→CCC) | sapA | antimicrobial peptide transport ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,665,702 | 0 | C | A | 53.7% | 69.0 / 187.9 | 124 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 3,640,981 | 0 | C | T | 52.9% | 14.3 / 102.0 | 85 | F40F (TTC→TTT) | dtpB | dipeptide and tripeptide permease B |
| * | NC_000913 | 29,496 | 0 | T | A | 50.0% | 51.5 / 83.6 | 82 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 4,604,350 | 0 | C | T | 50.0% | 65.5 / 73.9 | 116 | S64F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 357,875 | 0 | A | T | 49.2% | 37.0 / 37.5 | 64 | N272K (AAT→AAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 501,572 | 0 | A | C | 48.8% | 106.3 / 13.8 | 82 | V556G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 354,282 | 0 | T | G | 48.6% | 84.8 / 20.2 | 73 | V526G (GTT→GGT) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 4,065,580 | 0 | T | A | 48.1% | 60.1 / 53.4 | 83 | T63S (ACC→TCC) | yihO | putative sulphoquinovose importer |
| * | NC_000913 | 4,065,598 | 0 | G | A | 48.1% | 49.8 / 46.7 | 81 | L57L (CTG→TTG) | yihO | putative sulphoquinovose importer |
| * | NC_000913 | 827,507 | 0 | T | G | 47.9% | 143.4 / 27.3 | 96 | D492A (GAC→GCC) | ybhF | putative ABC transporter ATPase |
| * | NC_000913 | 5,159 | 0 | G | A | 47.9% | 39.6 / 51.7 | 72 | intergenic (+139/‑75) | thrC/yaaX | L‑threonine synthase/DUF2502 family putative periplasmic protein |
| * | NC_000913 | 1,554,000 | 0 | T | G | 47.5% | 91.0 / 19.4 | 101 | Y557S (TAC→TCC) | maeA | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme |
| * | NC_000913 | 328,807 | 0 | A | T | 47.1% | 29.7 / 38.2 | 53 | D176E (GAT→GAA) | betI | choline‑inducible betIBA‑betT divergent operon transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 130 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1828872 | 76 (0.740) | 8 (0.080) | 8/278 | 8.0 | 10.6% | coding (863/1479 nt) | astD | succinylglutamic semialdehyde dehydrogenase |
| ? | NC_000913 | = 1828893 | 64 (0.670) | coding (842/1479 nt) | astD | succinylglutamic semialdehyde dehydrogenase | |||||
| * | ? | NC_000913 | 4409174 = | NA (NA) | 8 (0.090) | 7/266 | 8.1 | 5.5% | noncoding (22/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4409235 = | 137 (1.490) | noncoding (83/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 3216165 = | 90 (0.880) | 7 (0.070) | 7/276 | 8.4 | 7.9% | coding (327/765 nt) | yqjH | putative siderophore interacting protein |
| ? | NC_000913 | 3216247 = | 80 (0.840) | coding (245/765 nt) | yqjH | putative siderophore interacting protein | |||||
| * | ? | NC_000913 | = 1082873 | 100 (0.980) | 7 (0.070) | 7/276 | 8.4 | 6.8% | coding (631/1128 nt) | efeO | inactive ferrous ion transporter EfeUOB |
| ? | NC_000913 | = 1083021 | 98 (1.030) | coding (779/1128 nt) | efeO | inactive ferrous ion transporter EfeUOB | |||||
| * | ? | NC_000913 | = 381689 | NA (NA) | 9 (0.090) | 7/278 | 8.5 | NA | noncoding (430/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381743 | NA (NA) | noncoding (484/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 3563404 = | 93 (0.910) | 8 (0.080) | 7/282 | 8.6 | 7.9% | coding (1392/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| ? | NC_000913 | 3563422 = | 97 (1.000) | coding (1410/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding | |||||
| * | ? | NC_000913 | 3927418 = | 105 (1.030) | 7 (0.070) | 6/272 | 8.9 | 6.7% | coding (264/993 nt) | asnA | asparagine synthetase A |
| ? | NC_000913 | 3927457 = | 99 (1.050) | coding (303/993 nt) | asnA | asparagine synthetase A | |||||
| * | ? | NC_000913 | = 2713829 | 119 (1.160) | 6 (0.060) | 6/274 | 8.9 | 5.1% | coding (934/1335 nt) | srmB | ATP‑dependent RNA helicase |
| ? | NC_000913 | = 2713908 | 115 (1.220) | coding (1013/1335 nt) | srmB | ATP‑dependent RNA helicase | |||||
| * | ? | NC_000913 | 4516891 = | 93 (0.910) | 8 (0.080) | 6/278 | 9.0 | 8.7% | coding (827/954 nt) | fecR | anti‑sigma transmembrane signal transducer for ferric citrate transport; periplasmic FecA‑bound ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator |
| ? | NC_000913 | 4516925 = | 81 (0.840) | coding (793/954 nt) | fecR | anti‑sigma transmembrane signal transducer for ferric citrate transport; periplasmic FecA‑bound ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator | |||||
| * | ? | NC_000913 | 3619878 = | NA (NA) | 8 (0.080) | 6/278 | 9.0 | 100% | coding (687/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3619892 = | 0 (0.000) | coding (701/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||