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 | ||
| * | NC_000913_3_bme_pgi | 3,546,391 | 0 | C | T | 67.7% | 79.2 / 52.7 | 65 | intergenic (+192/‑168) | nfuA/gntT | Fe/S biogenesis protein, putative scaffold/chaperone protein/gluconate transporter, high‑affinity GNT I system |
| * | NC_000913_3_bme_pgi | 4,158,779 | 0 | T | G | 67.2% | 81.6 / 54.3 | 58 | L97W (TTG→TGG) | oxyR | oxidative and nitrosative stress transcriptional regulator |
| * | NC_000913_3_bme_pgi | 4,158,885 | 0 | A | C | 55.9% | 39.2 / 71.4 | 59 | L132F (TTA→TTC) | oxyR | oxidative and nitrosative stress transcriptional regulator |
| * | NC_000913_3_bme_pgi | 1,756,497 | 0 | G | T | 54.0% | 10.3 / 134.1 | 87 | C267F (TGT→TTT) | pykF | pyruvate kinase I |
| * | NC_000913_3_bme_pgi | 639,724 | 0 | T | G | 27.0% | 168.5 / 79.3 | 100 | intergenic (+216/‑29) | ahpC/ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| * | NC_000913_3_bme_pgi | 526,796 | 0 | C | G | 26.7% | 182.4 / 72.8 | 90 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,800 | 0 | A | G | 25.3% | 162.7 / 48.2 | 87 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,792 | 0 | A | C | 24.7% | 174.3 / 65.6 | 97 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 4,296,061 | 0 | C | T | 23.6% | 231.5 / 68.1 | 123 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_bme_pgi | 4,520,501 | 0 | A | . | 22.9% | 187.2 / 53.1 | 70 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913_3_bme_pgi | 4,520,505 | 1 | . | T | 22.9% | 156.6 / 73.1 | 70 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| Marginal new junction evidence (lowest skew 10 of 536 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_bme_pgi | 4227543 = | 1551 (18.220) | 101 (1.250) | 52/260 | 0.7 | 6.7% | intergenic (+32/‑188) | metH/yjbB | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter |
| ? | NC_000913_3_bme_pgi | 4227568 = | 1323 (16.380) | intergenic (+57/‑163) | metH/yjbB | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent/putative Na+/Pi‑cotransporter | |||||
| * | ? | NC_000913_3_bme_pgi | 4233518 = | 1426 (16.760) | 84 (1.120) | 45/242 | 1.0 | 6.3% | intergenic (‑285/‑2389) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein |
| ? | NC_000913_3_bme_pgi | 4233534 = | 1228 (16.340) | intergenic (‑301/‑2373) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 4234998 | 1534 (18.020) | 106 (1.260) | 42/270 | 1.7 | 6.5% | intergenic (‑1765/‑909) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein |
| ? | NC_000913_3_bme_pgi | = 4235015 | 1523 (18.160) | intergenic (‑1782/‑892) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 4229386 | 1230 (14.450) | 72 (0.890) | 39/260 | 1.8 | 5.8% | noncoding (11/70 nt) | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_bme_pgi | = 4229405 | NA (NA) | noncoding (30/70 nt) | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP312 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_bme_pgi | = 4224756 | 1346 (15.820) | 65 (0.780) | 39/270 | 2.0 | 4.6% | coding (929/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
| ? | NC_000913_3_bme_pgi | = 4224775 | 1357 (16.180) | coding (948/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent | |||||
| * | ? | NC_000913_3_bme_pgi | = 4235432 | 1223 (14.370) | 79 (0.980) | 37/260 | 2.1 | 6.4% | noncoding (11/77 nt) | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_bme_pgi | = 4235448 | NA (NA) | noncoding (27/77 nt) | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP313 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_bme_pgi | = 4227806 | 1436 (16.870) | 78 (0.930) | 35/270 | 2.5 | 5.3% | coding (76/1632 nt) | yjbB | putative Na+/Pi‑cotransporter |
| ? | NC_000913_3_bme_pgi | = 4227825 | 1392 (16.600) | coding (95/1632 nt) | yjbB | putative Na+/Pi‑cotransporter | |||||
| * | ? | NC_000913_3_bme_pgi | 4224755 = | 1346 (15.820) | 54 (0.640) | 34/270 | 2.7 | 3.9% | coding (928/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
| ? | NC_000913_3_bme_pgi | 4224778 = | 1357 (16.180) | coding (951/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent | |||||
| * | ? | NC_000913_3_bme_pgi | = 4234159 | 1598 (18.780) | 63 (0.770) | 31/264 | 3.0 | 3.9% | intergenic (‑926/‑1748) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein |
| ? | NC_000913_3_bme_pgi | = 4234185 | 1548 (18.880) | intergenic (‑952/‑1722) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 4226475 | 1259 (14.790) | 50 (0.610) | 31/262 | 3.0 | 3.9% | coding (2648/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
| ? | NC_000913_3_bme_pgi | = 4226484 | 1278 (15.700) | coding (2657/3684 nt) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent | |||||