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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,259,592 | 0 | G | T | 74.3% | 197.3 / 92.1 | 113 | S278* (TCG→TAG) | tdcA | tdc operon transcriptional activator |
| * | CP009273 | 4,178,209 | 0 | C | T | 66.4% | 165.4 / 127.4 | 119 | R978C (CGT→TGT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 2,892,976 | 0 | A | T | 40.2% | 66.2 / 117.4 | 87 | D219E (GAT→GAA) | ygcW | putative dehydrogenase |
| * | CP009273 | 3,364,963 | 0 | G | A | 35.8% | 130.4 / 147.3 | 123 | A324V (GCG→GTG) | nanT | sialic acid transporter |
| * | CP009273 | 1,828,727 | 0 | G | C | 30.4% | 120.9 / 13.4 | 57 | E119Q (GAA→CAA) ‡ | ydjY | putative ferrodoxin‑like lipoprotein |
| * | CP009273 | 3,333,190 | 0 | G | A | 27.4% | 166.9 / 77.7 | 95 | R79C (CGC→TGC) | mlaF | ABC transporter maintaining OM lipid asymmetry, ATP‑binding protein |
| * | CP009273 | 1,828,729 | 0 | A | C | 25.4% | 106.9 / 10.6 | 55 | E119D (GAA→GAC) ‡ | ydjY | putative ferrodoxin‑like lipoprotein |
| * | CP009273 | 2,178,908 | 0 | T | G | 23.4% | 172.5 / 19.5 | 77 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1203246 = | 48 (0.450) | 18 (0.190) | 16/240 | 7.9 | 23.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 75 (0.790) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 222433 | NA (NA) | 9 (0.090) | 7/262 | 12.8 | NA | noncoding (188/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 222452 | NA (NA) | noncoding (207/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | = 4537165 | 95 (0.880) | 6 (0.060) | 4/260 | 14.7 | 6.3% | coding (2253/2637 nt) | fimD | fimbrial usher outer membrane porin protein; FimCD chaperone‑usher |
| ? | CP009273 | = 4537182 | 89 (0.870) | coding (2270/2637 nt) | fimD | fimbrial usher outer membrane porin protein; FimCD chaperone‑usher | |||||
| * | ? | CP009273 | 4342177 = | 105 (0.980) | 4 (0.040) | 4/260 | 14.7 | 3.9% | intergenic (+3/‑224) | yjdJ/yjdK | putative acyl‑CoA transferase/uncharacterized protein |
| ? | CP009273 | 4342213 = | 96 (0.930) | intergenic (+39/‑188) | yjdJ/yjdK | putative acyl‑CoA transferase/uncharacterized protein | |||||
| * | ? | CP009273 | = 1678760 | 80 (0.740) | 6 (0.060) | 4/260 | 14.7 | 7.2% | coding (245/930 nt) | tus | inhibitor of replication at Ter, DNA‑binding protein |
| ? | CP009273 | = 1678804 | 78 (0.760) | coding (289/930 nt) | tus | inhibitor of replication at Ter, DNA‑binding protein | |||||
| * | ? | CP009273 | = 1210242 | 84 (0.780) | 4 (0.040) | 4/266 | 14.9 | 4.3% | coding (690/1212 nt) | bluF | anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP |
| ? | CP009273 | = 1210262 | 96 (0.910) | coding (670/1212 nt) | bluF | anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP | |||||
| * | ? | CP009273 | 2620109 = | 120 (1.120) | 7 (0.070) | 4/268 | 15.0 | 5.7% | coding (2189/2244 nt) | yfgF | cyclic‑di‑GMP phosphodiesterase, anaerobic |
| ? | CP009273 | 2620130 = | 114 (1.080) | coding (2168/2244 nt) | yfgF | cyclic‑di‑GMP phosphodiesterase, anaerobic | |||||
| * | ? | CP009273 | = 4366892 | 116 (1.080) | 3 (0.030) | 3/260 | 15.5 | 2.6% | coding (201/318 nt) | sugE | multidrug efflux system protein |
| ? | CP009273 | = 4366944 | 114 (1.110) | coding (253/318 nt) | sugE | multidrug efflux system protein | |||||
| * | ? | CP009273 | = 2785006 | 136 (1.270) | 3 (0.030) | 3/268 | 15.8 | 2.2% | coding (375/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent |
| ? | CP009273 | = 2785046 | 132 (1.250) | coding (415/1449 nt) | gabD | succinate‑semialdehyde dehydrogenase I, NADP‑dependent | |||||