mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 4,188,509 | 0 | A | G | 31.9% | 165.2 / 117.4 | 143 | T1054A (ACC→GCC) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 4,606,323 | 0 | G | . | 30.8% | 174.4 / 85.9 | 79 | noncoding (79/87 nt) | leuQ | tRNA‑Leu |
| * | NC_000913 | 1,621,344 | 0 | C | A | 27.5% | 197.0 / 65.4 | 109 | L5I (CTA→ATA) | ydeE | putative transporter |
| * | NC_000913 | 4,296,268 | 0 | T | C | 25.6% | 56.3 / 16.9 | 46 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,296,304 | 0 | A | C | 20.8% | 92.8 / 10.7 | 54 | intergenic (+510/+132) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 46 (0.350) | 36/506 | 3.1 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 4295832 = | NA (NA) | 8 (0.070) | 4/436 | 11.5 | NA | intergenic (+38/+604) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| ? | NC_000913 | = 4296394 | NA (NA) | noncoding (560/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | = 3398775 | 98 (0.740) | 4 (0.030) | 4/498 | 12.5 | 4.1% | coding (101/489 nt) | mreD | cell wall structural complex MreBCD transmembrane component MreD |
| ? | NC_000913 | = 3398789 | 91 (0.710) | coding (87/489 nt) | mreD | cell wall structural complex MreBCD transmembrane component MreD | |||||
| * | ? | NC_000913 | 1707018 = | 106 (0.800) | 3 (0.020) | 3/494 | 13.2 | 2.8% | coding (100/2223 nt) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| ? | NC_000913 | 1707042 = | 104 (0.820) | coding (124/2223 nt) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex | |||||
| * | ? | NC_000913 | = 4612024 | 116 (0.880) | 3 (0.020) | 3/498 | 13.3 | 2.6% | intergenic (+23/‑104) | osmY/ytjA | salt‑inducible putative ABC transporter periplasmic binding protein/uncharacterized protein |
| ? | NC_000913 | = 4612030 | 114 (0.890) | intergenic (+29/‑98) | osmY/ytjA | salt‑inducible putative ABC transporter periplasmic binding protein/uncharacterized protein | |||||
| * | ? | NC_000913 | 3774024 = | 631 (4.770) | 3 (0.020) | 3/498 | 13.3 | 0.49% | coding (1744/1914 nt) | mtlA | mannitol‑specific PTS enzyme: IIA, IIB and IIC components |
| ? | NC_000913 | = 3774020 | 609 (4.750) | coding (1740/1914 nt) | mtlA | mannitol‑specific PTS enzyme: IIA, IIB and IIC components | |||||
| * | ? | NC_000913 | = 3211035 | 126 (0.970) | 4 (0.030) +GTT |
3/498 | 13.3 | 3.1% | intergenic (+39/‑72) | rpsU/dnaG | 30S ribosomal subunit protein S21/DNA primase |
| ? | NC_000913 | 3211036 = | 127 (0.960) | intergenic (+40/‑71) | rpsU/dnaG | 30S ribosomal subunit protein S21/DNA primase | |||||
| * | ? | NC_000913 | = 2294243 | 82 (0.620) | 3 (0.020) | 3/502 | 13.3 | 3.4% | coding (662/1944 nt) | ccmF | heme lyase, CcmF subunit |
| ? | NC_000913 | = 2294447 | 89 (0.690) | coding (458/1944 nt) | ccmF | heme lyase, CcmF subunit | |||||
| * | ? | NC_000913 | 2895089 = | 104 (0.790) | 3 (0.020) | 3/504 | 13.4 | 2.8% | coding (691/861 nt) | ygcQ | putative flavoprotein |
| ? | NC_000913 | 2895391 = | 110 (0.850) | coding (389/861 nt) | ygcQ | putative flavoprotein | |||||
| * | ? | NC_000913 | = 2866052 | 112 (0.850) | 3 (0.020) | 3/504 | 13.4 | 2.3% | coding (952/1365 nt) | ygbN | putative transporter |
| ? | NC_000913 | = 2866174 | 142 (1.090) | coding (1074/1365 nt) | ygbN | putative transporter | |||||