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_pae_tpiA | 1,544,021 | 1 | . | A | 73.6% | 235.6 / 86.4 | 91 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_pae_tpiA | 4,295,976 | 0 | C | T | 25.7% | 293.7 / 103.7 | 179 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 159 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | = 1207805 | 96 (0.820) | 19 (0.180) | 18/248 | 8.8 | 16.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_tpiA | = 1209602 | 109 (1.050) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_tpiA | 1207790 = | 93 (0.790) | 17 (0.160) | 16/248 | 9.6 | 14.9% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_tpiA | 1209619 = | 112 (1.070) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_tpiA | 3423376 = | 138 (1.170) | 28 (0.240) | 18/276 | 9.9 | 17.1% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_pae_tpiA | 3423665 = | NA (NA) | intergenic (‑10/+3) | thrV/rrfD | tRNA‑Thr/5S ribosomal RNA of rrnD operon | |||||
| * | ? | NC_000913_3_pae_tpiA | 3423376 = | 138 (1.170) | 19 (0.160) | 11/276 | 13.1 | 14.4% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_pae_tpiA | = 4213078 | 90 (0.780) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913_3_pae_tpiA | 3423376 = | 138 (1.170) | 16 (0.140) | 10/276 | 13.6 | 15.8% | intergenic (+182/+47) | yhdZ/rrfF | putative amino acid ABC transporter ATPase/5S ribosomal RNA of rrnD operon |
| ? | NC_000913_3_pae_tpiA | = 3946822 | 35 (0.300) | intergenic (+3/‑50) | rrfC/aspT | 5S ribosomal RNA of rrnC operon/tRNA‑Asp | |||||
| * | ? | NC_000913_3_pae_tpiA | 292971 = | 108 (0.920) | 9 (0.080) | 9/264 | 13.7 | 8.2% | intergenic (‑23/+249) | yagK/yagL | CP4‑6 prophage; conserved protein/CP4‑6 prophage; DNA‑binding protein |
| ? | NC_000913_3_pae_tpiA | 292992 = | 101 (0.910) | intergenic (‑44/+228) | yagK/yagL | CP4‑6 prophage; conserved protein/CP4‑6 prophage; DNA‑binding protein | |||||
| * | ? | NC_000913_3_pae_tpiA | 4040640 = | 102 (0.870) | 9 (0.080) | 8/252 | 13.8 | 8.9% | intergenic (+4/+266) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913_3_pae_tpiA | 4040684 = | NA (NA) | intergenic (+48/+222) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B | |||||
| * | ? | NC_000913_3_pae_tpiA | = 274419 | NA (NA) | 13 (0.110) | 9/270 | 14.0 | NA | coding (699/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | NC_000913_3_pae_tpiA | = 274423 | NA (NA) | coding (695/1017 nt) | insH1 | IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2242212 | 119 (1.010) | 8 (0.070) | 8/266 | 14.4 | 6.8% | coding (756/1158 nt) | yeiB | DUF418 family putative inner membrane protein |
| ? | NC_000913_3_pae_tpiA | = 2242221 | 105 (0.940) | coding (747/1158 nt) | yeiB | DUF418 family putative inner membrane protein | |||||
| * | ? | NC_000913_3_pae_tpiA | 4153262 = | NA (NA) | 5 (0.050) +26 bp |
5/228 | 14.7 | 4.2% | intergenic (‑248/+350) | ppc/argE | phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
| ? | NC_000913_3_pae_tpiA | = 4450893 | 139 (1.180) | noncoding (34/85 nt) | REP336 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP336 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||