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 | 74.4% | 101.7 / 31.8 | 39 | coding (40/1389 nt) | narU | nitrate/nitrite transporter |
| * | NC_000913_3_pae_tpiA | 4,295,976 | 0 | C | T | 21.9% | 221.5 / 53.4 | 137 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 26 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | = 3944978 | NA (NA) | 13 (0.160) | 10/272 | 5.1 | 19.8% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_tpiA | = 4038811 | 55 (0.670) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_tpiA | 2727891 = | NA (NA) | 12 (0.150) | 10/272 | 5.1 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_pae_tpiA | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 227052 | 55 (0.670) | 12 (0.150) | 10/272 | 5.1 | 18.6% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 1207805 | 48 (0.580) | 8 (0.110) | 8/252 | 5.4 | 14.9% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_pae_tpiA | = 1209602 | 49 (0.670) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2406375 | 76 (0.920) | 6 (0.080) | 6/262 | 6.3 | 7.8% | coding (267/939 nt) | lrhA | transcriptional repressor of flagellar, motility and chemotaxis genes |
| ? | NC_000913_3_pae_tpiA | = 2406380 | 72 (0.950) | coding (262/939 nt) | lrhA | transcriptional repressor of flagellar, motility and chemotaxis genes | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3792764 | 88 (1.070) | 5 (0.070) | 5/262 | 6.7 | 5.6% | intergenic (‑213/+62) | kbl/yibB | glycine C‑acetyltransferase/YibB family protein, function unknown |
| ? | NC_000913_3_pae_tpiA | = 3792768 | 86 (1.130) | intergenic (‑217/+58) | kbl/yibB | glycine C‑acetyltransferase/YibB family protein, function unknown | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4094602 | 131 (1.590) | 8 (0.100) | 5/270 | 6.8 | 5.9% | noncoding (287/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913_3_pae_tpiA | = 4094618 | 133 (1.700) | noncoding (303/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4094533 | 146 (1.770) | 7 (0.090) | 5/270 | 6.8 | 5.2% | noncoding (218/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913_3_pae_tpiA | = 4094595 | 118 (1.510) | noncoding (280/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | = 4038798 | 62 (0.750) | 5 (0.060) | 5/272 | 6.8 | 8.0% | noncoding (1280/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon |
| ? | NC_000913_3_pae_tpiA | = 4038805 | 55 (0.700) | noncoding (1287/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3944991 | NA (NA) | 5 (0.060) | 5/272 | 6.8 | 7.8% | noncoding (1288/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_tpiA | = 4038798 | 62 (0.750) | noncoding (1280/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||