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 118 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,386,862 | 0 | G | A | 64.7% | 3.1 / 28.3 | 34 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 1,982,513 | 0 | C | G | 63.2% | 11.7 / 42.5 | 39 | intergenic (‑126/+41) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 993,917 | 0 | A | C | 63.0% | 14.3 / 28.5 | 27 | V43G (GTG→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 2,984,441 | 0 | A | C | 62.1% | 19.9 / 31.2 | 30 | G384G (GGT→GGG) | yqeF | short chain acyltransferase |
| * | NC_000913 | 75,079 | 0 | C | T | 60.0% | 4.2 / 47.7 | 40 | L134L (CTG→CTA) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,035,757 | 0 | A | C | 59.2% | 30.5 / 54.4 | 49 | G150G (GGT→GGG) | prfB | peptide chain release factor RF‑2 |
| * | NC_000913 | 599,576 | 0 | T | G | 58.3% | 9.9 / 25.2 | 24 | V288G (GTG→GGG) | cusA | copper/silver efflux system, membrane component |
| * | NC_000913 | 1,079,468 | 0 | A | G | 58.3% | 4.7 / 23.8 | 24 | D55G (GAT→GGT) | putP | proline:sodium symporter |
| * | NC_000913 | 357,880 | 0 | T | C | 58.1% | 8.4 / 30.7 | 31 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,613,904 | 0 | A | C | 56.0% | 18.8 / 29.0 | 25 | V267G (GTA→GGA) | sad | succinate semialdehyde dehydrogenase, NAD(P)+‑dependent |
| * | NC_000913 | 1,356,201 | 0 | T | G | 55.0% | 6.5 / 16.0 | 20 | T304P (ACC→CCC) | sapA | antimicrobial peptide transport ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,177,531 | 0 | A | C | 54.8% | 34.6 / 45.3 | 31 | V127G (GTG→GGG) | nudF | ADP‑ribose pyrophosphatase |
| * | NC_000913 | 300,711 | 0 | G | C | 54.3% | 13.1 / 41.3 | 35 | P75R (CCG→CGG) | paoC | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| * | NC_000913 | 354,288 | 0 | T | G | 53.3% | 42.6 / 59.1 | 45 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 75,074 | 0 | T | G | 52.5% | 39.7 / 56.0 | 40 | N136T (AAC→ACC) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,982,551 | 0 | G | A | 52.5% | 13.2 / 48.1 | 40 | intergenic (‑164/+3) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 2,337,723 | 0 | A | C | 52.5% | 46.9 / 65.3 | 40 | G566G (GGT→GGG) | gyrA | DNA gyrase (type II topoisomerase), subunit A |
| * | NC_000913 | 1,982,523 | 0 | A | G | 52.4% | 27.4 / 47.8 | 42 | intergenic (‑136/+31) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 2,903,692 | 0 | C | A | 51.1% | 34.8 / 74.3 | 45 | intergenic (+318/+1055) | ygcE/queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| * | NC_000913 | 1,129,303 | 0 | A | G | 50.0% | 9.5 / 18.5 | 26 | I489V (ATT→GTT) | murJ | putative lipid II flippase |
| Marginal new junction evidence (lowest skew 10 of 103 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1616905 | 1565 (33.760) | 40 (0.930) | 23/276 | 0.5 | 2.6% | intergenic (+27/‑123) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | = 1616917 | 1563 (36.160) | intergenic (+39/‑111) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | 1616896 = | 1566 (33.780) | 21 (0.490) | 18/276 | 0.8 | 1.4% | intergenic (+18/‑132) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | 1616928 = | 1563 (36.160) | intergenic (+50/‑100) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | = 1622333 | 1678 (36.190) | 16 (0.360) | 11/280 | 1.7 | 0.91% | coding (1002/1188 nt) | ydeE | putative transporter |
| ? | NC_000913 | = 1622355 | 1882 (42.910) | coding (1024/1188 nt) | ydeE | putative transporter | |||||
| * | ? | NC_000913 | 3927418 = | 70 (1.510) | 8 (0.190) | 7/272 | 2.4 | 12.6% | coding (264/993 nt) | asnA | asparagine synthetase A |
| ? | NC_000913 | 3927457 = | 47 (1.100) | coding (303/993 nt) | asnA | asparagine synthetase A | |||||
| * | ? | NC_000913 | = 1622778 | 1437 (31.000) | 9 (0.210) | 7/276 | 2.5 | 0.62% | intergenic (+37/+182) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| ? | NC_000913 | = 1622789 | 1531 (35.420) | intergenic (+48/+171) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing | |||||
| * | ? | NC_000913 | 4409174 = | NA (NA) | 10 (0.240) | 6/266 | 2.6 | 11.8% | 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 = | 75 (1.800) | 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 | 1242577 = | 36 (0.780) | 5 (0.120) | 5/260 | 2.9 | 12.9% | coding (504/915 nt) | ldcA | murein tetrapeptide carboxypeptidase; LD‑carboxypeptidase A |
| ? | NC_000913 | 1242595 = | 36 (0.880) | coding (486/915 nt) | ldcA | murein tetrapeptide carboxypeptidase; LD‑carboxypeptidase A | |||||
| * | ? | NC_000913 | 197975 = | 59 (1.270) | 5 (0.120) | 5/268 | 2.9 | 9.1% | coding (48/2433 nt) | bamA | BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor |
| ? | NC_000913 | 197989 = | 47 (1.120) | coding (62/2433 nt) | bamA | BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor | |||||
| * | ? | NC_000913 | 4516891 = | 37 (0.800) | 5 (0.110) | 5/278 | 3.0 | 13.0% | 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 = | 32 (0.730) | 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 | 4409625 = | 59 (1.270) | 6 (0.140) | 5/276 | 3.0 | 10.5% | coding (351/732 nt) | rlmB | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent |
| ? | NC_000913 | 4409708 = | 47 (1.090) | coding (434/732 nt) | rlmB | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent | |||||