breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Marginal read alignment evidence | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913_3_pae_tpiA | 4,295,976 | 0 | C | T | 26.7% | 94.0 / 45.4 | 76 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
Marginal new junction evidence (lowest skew 10 of 162 shown) | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NC_000913_3_pae_tpiA | = 1207805 | 49 (0.930) | 14 (0.300) | 14/250 | 3.1 | 21.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
? | NC_000913_3_pae_tpiA | = 1209602 | 58 (1.240) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
* | ? | NC_000913_3_pae_tpiA | 1207790 = | 54 (1.030) | 12 (0.260) | 12/250 | 3.6 | 18.5% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
? | NC_000913_3_pae_tpiA | 1209619 = | 58 (1.240) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
* | ? | NC_000913_3_pae_tpiA | 2024598 = | 54 (1.030) | 8 (0.160) | 8/260 | 5.2 | 14.1% | intergenic (+7/+37) | rcsA/dsrB | transcriptional regulator of colanic acid capsular biosynthesis/uncharacterized protein |
? | NC_000913_3_pae_tpiA | 2024624 = | 48 (0.990) | intergenic (+33/+11) | rcsA/dsrB | transcriptional regulator of colanic acid capsular biosynthesis/uncharacterized protein | |||||
* | ? | NC_000913_3_pae_tpiA | 3587430 = | 59 (1.120) | 7 (0.140) | 7/262 | 5.7 | 11.0% | coding (684/744 nt) | ugpQ | glycerophosphodiester phosphodiesterase, cytosolic |
? | NC_000913_3_pae_tpiA | 3587464 = | 59 (1.210) | coding (650/744 nt) | ugpQ | glycerophosphodiester phosphodiesterase, cytosolic | |||||
* | ? | NC_000913_3_pae_tpiA | = 2729464 | 35 (0.670) | 8 (0.160) | 7/266 | 5.7 | 21.3% | intergenic (‑20/+152) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
? | NC_000913_3_pae_tpiA | 4168265 = | 26 (0.520) | intergenic (+149/‑23) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
* | ? | NC_000913_3_pae_tpiA | = 2304902 | 26 (0.490) | 8 (0.200) +33 bp |
4/216 | 6.1 | 28.7% | noncoding (486/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
? | NC_000913_3_pae_tpiA | = 2305065 | NA (NA) | noncoding (649/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
* | ? | NC_000913_3_pae_tpiA | = 2304676 | 34 (0.650) | 8 (0.200) +33 bp |
4/216 | 6.1 | 23.5% | noncoding (260/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
? | NC_000913_3_pae_tpiA | = 2305065 | NA (NA) | noncoding (649/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
* | ? | NC_000913_3_pae_tpiA | = 4523387 | 67 (1.270) | 7 (0.140) | 6/264 | 6.2 | 9.8% | coding (624/1968 nt) | yjhG | putative dehydratase |
? | NC_000913_3_pae_tpiA | = 4523394 | 66 (1.340) | coding (617/1968 nt) | yjhG | putative dehydratase | |||||
* | ? | NC_000913_3_pae_tpiA | = 3426853 | 25 (0.480) | 6 (0.120) | 6/268 | 6.2 | 20.2% | intergenic (‑70/+105) | rrlD/alaU | 23S ribosomal RNA of rrnD operon/tRNA‑Ala |
? | NC_000913_3_pae_tpiA | 3943643 = | NA (NA) | intergenic (+133/‑61) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon | |||||
* | ? | NC_000913_3_pae_tpiA | 3173468 = | 54 (1.030) | 6 (0.120) | 6/266 | 6.2 | 10.3% | intergenic (+12/+36) | ygiN/parE | quinol monooxygenase/DNA topoisomerase IV, subunit B |
? | NC_000913_3_pae_tpiA | 3173493 = | 54 (1.090) | intergenic (+37/+11) | ygiN/parE | quinol monooxygenase/DNA topoisomerase IV, subunit B |