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 434 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,386,862 | 0 | G | A | 61.5% | 16.6 / 65.5 | 65 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 357,890 | 0 | C | A | 56.4% | 3.4 / 33.8 | 39 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 523,335 | 0 | T | G | 55.9% | 37.3 / 67.9 | 60 | G25G (GGT→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913 | 357,880 | 0 | T | C | 52.5% | 27.8 / 59.8 | 40 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 2,332,823 | 0 | A | G | 51.5% | 65.6 / 97.0 | 67 | pseudogene (1580/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| * | NC_000913 | 3,133,302 | 0 | T | G | 50.0% | 42.8 / 24.2 | 50 | H219P (CAC→CCC) | yghS | putative ATP‑binding protein |
| * | NC_000913 | 3,665,702 | 0 | C | A | 49.4% | 50.6 / 60.2 | 81 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 1,356,201 | 0 | T | G | 48.8% | 40.7 / 13.5 | 45 | T304P (ACC→CCC) | sapA | antimicrobial peptide transport ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,640,981 | 0 | C | T | 48.1% | 55.1 / 47.5 | 81 | F40F (TTC→TTT) | dtpB | dipeptide and tripeptide permease B |
| * | NC_000913 | 3,665,698 | 0 | T | C | 47.5% | 46.2 / 58.7 | 83 | D38G (GAT→GGT) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 3,760,384 | 0 | A | C | 47.4% | 42.4 / 24.6 | 58 | V289G (GTG→GGG) | selA | selenocysteine synthase |
| * | NC_000913 | 3,686,028 | 0 | T | C | 45.5% | 62.8 / 16.6 | 55 | E1049G (GAG→GGG) | bcsC | cellulose synthase subunit |
| * | NC_000913 | 29,496 | 0 | T | A | 45.3% | 62.4 / 30.2 | 53 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 827,507 | 0 | T | G | 45.1% | 61.7 / 11.2 | 51 | D492A (GAC→GCC) | ybhF | putative ABC transporter ATPase |
| * | NC_000913 | 1,506,028 | 0 | A | C | 45.0% | 83.2 / 18.0 | 61 | V18G (GTA→GGA) | ydcO | BenE family inner membrane putative transporter |
| * | NC_000913 | 1,554,000 | 0 | T | G | 45.0% | 55.8 / 10.1 | 61 | Y557S (TAC→TCC) | maeA | malate dehydrogenase, decarboxylating, NAD‑requiring; malic enzyme |
| * | NC_000913 | 827,499 | 0 | T | G | 44.4% | 51.7 / 13.7 | 48 | T495P (ACC→CCC) | ybhF | putative ABC transporter ATPase |
| * | NC_000913 | 1,239,823 | 0 | T | G | 44.1% | 64.3 / 13.6 | 62 | G315G (GGT→GGG) | dadX | alanine racemase, catabolic, PLP‑binding |
| * | NC_000913 | 2,386,883 | 0 | C | T | 43.9% | 45.7 / 51.9 | 68 | intergenic (+52/‑51) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 523,387 | 0 | A | G | 43.8% | 57.4 / 13.5 | 48 | M43V (ATG→GTG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 113 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 381689 | NA (NA) | 11 (0.160) | 11/278 | 4.4 | NA | noncoding (430/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381743 | NA (NA) | noncoding (484/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1987441 | 80 (1.090) | 7 (0.100) | 7/276 | 5.9 | 8.9% | intergenic (+13/+66) | ftnB/yecJ | ferritin B, putative ferrous iron reservoir/DUF2766 family protein |
| ? | NC_000913 | = 1987450 | 68 (1.000) | intergenic (+22/+57) | ftnB/yecJ | ferritin B, putative ferrous iron reservoir/DUF2766 family protein | |||||
| * | ? | NC_000913 | = 3381847 | 69 (0.940) | 7 (0.100) | 7/278 | 6.0 | 10.2% | coding (1105/1368 nt) | degQ | serine endoprotease, periplasmic |
| ? | NC_000913 | = 3381859 | 58 (0.840) | coding (1117/1368 nt) | degQ | serine endoprotease, periplasmic | |||||
| * | ? | NC_000913 | 2647275 = | 65 (0.890) | 6 (0.090) | 6/278 | 6.4 | 8.9% | coding (51/2313 nt) | pbpC | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein |
| ? | NC_000913 | 2647305 = | 62 (0.900) | coding (21/2313 nt) | pbpC | penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain protein | |||||
| * | ? | NC_000913 | 315401 = | NA (NA) | 5 (0.080) | 5/270 | 6.8 | NA | noncoding (173/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | 315627 = | NA (NA) | noncoding (399/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 4516891 = | 73 (1.000) | 5 (0.070) | 5/278 | 6.9 | 6.6% | 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 = | 72 (1.050) | 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 | = 4199296 | 59 (0.810) | 6 (0.090) | 5/276 | 6.9 | 9.3% | coding (507/672 nt) | nfi | endonuclease V; deoxyinosine 3' endonuclease |
| ? | NC_000913 | = 4199336 | 62 (0.910) | coding (547/672 nt) | nfi | endonuclease V; deoxyinosine 3' endonuclease | |||||
| * | ? | NC_000913 | = 3427065 | NA (NA) | 5 (0.070) | 5/278 | 6.9 | NA | intergenic (‑32/+11) | alaU/ileU | tRNA‑Ala/tRNA‑Ile |
| ? | NC_000913 | = 3427068 | NA (NA) | intergenic (‑35/+8) | alaU/ileU | tRNA‑Ala/tRNA‑Ile | |||||
| * | ? | NC_000913 | = 3209213 | 65 (0.890) | 5 (0.070) | 5/276 | 6.9 | 7.9% | coding (1190/1464 nt) | ttdT | L‑tartrate/succinate antiporte |
| ? | NC_000913 | = 3209256 | 56 (0.820) | coding (1233/1464 nt) | ttdT | L‑tartrate/succinate antiporte | |||||
| * | ? | NC_000913 | = 2840164 | 89 (1.220) | 5 (0.070) | 5/278 | 6.9 | 5.4% | coding (641/1458 nt) | ascF | cellobiose/arbutin/salicin‑specific PTS enzymes, IIB and IC components |
| ? | NC_000913 | = 2840252 | 91 (1.330) | coding (729/1458 nt) | ascF | cellobiose/arbutin/salicin‑specific PTS enzymes, IIB and IC components | |||||