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 | 4,295,976 | 0 | C | T | 32.7% | 297.5 / 189.5 | 220 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 1,449,050 | 0 | T | A | 24.3% | 304.8 / 110.0 | 144 | intergenic (+32/+26) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| * | NC_000913_3_pae_tpiA | 4,520,416 | 0 | A | . | 20.0% | 463.6 / 116.1 | 155 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| Marginal new junction evidence (lowest skew 10 of 558 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | 1552249 = | NA (NA) | 39 (0.310) | 30/220 | 7.5 | NA | noncoding (1/97 nt) | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_tpiA | 1552279 = | NA (NA) | noncoding (31/97 nt) | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_tpiA | 1552101 = | NA (NA) | 33 (0.270) | 30/220 | 7.5 | NA | noncoding (31/97 nt) | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_tpiA | 1552249 = | NA (NA) | noncoding (1/97 nt) | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_tpiA | 1552071 = | NA (NA) | 39 (0.310) | 30/220 | 7.5 | NA | noncoding (1/97 nt) | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_tpiA | 1552279 = | NA (NA) | noncoding (31/97 nt) | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP121 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_tpiA | 1552071 = | NA (NA) | 32 (0.260) | 29/220 | 7.8 | NA | noncoding (1/97 nt) | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_pae_tpiA | 1552101 = | NA (NA) | noncoding (31/97 nt) | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP120 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913_3_pae_tpiA | 225078 = | NA (NA) | 33 (0.250) | 29/230 | 8.3 | NA | noncoding (1308/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | 225100 = | NA (NA) | noncoding (1330/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 59296 | 142 (1.030) | 29 (0.240) | 25/210 | 8.5 | 19.3% | intergenic (+17/+391) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_pae_tpiA | = 59302 | 120 (1.010) | intergenic (+23/+385) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3946053 | 5 (0.040) | 38 (0.290) | 27/236 | 9.2 | 88.7% | noncoding (2350/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_tpiA | = 3946069 | NA (NA) | noncoding (2366/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 228108 | NA (NA) | 36 (0.270) | 25/236 | 9.9 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3269966 | 152 (1.100) | 26 (0.210) | 22/220 | 10.1 | 16.7% | intergenic (+364/+250) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component |
| ? | NC_000913_3_pae_tpiA | = 3270083 | 122 (0.980) | intergenic (+481/+133) | yhaC/rnpB | pentapetide repeats‑related protein/RNase P, M1 RNA component | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2497022 | 121 (0.880) | 24 (0.190) | 21/222 | 10.6 | 17.9% | intergenic (+30/+35) | ypdK/alaC | inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase |
| ? | NC_000913_3_pae_tpiA | = 2497026 | 110 (0.880) | intergenic (+34/+31) | ypdK/alaC | inner membrane protein/glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase | |||||