mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
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 | 3,705,984 | 0 | T | G | 28.2% | 305.1 / 140.3 | 142 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 28.2% | 273.0 / 113.6 | 142 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 4,296,060 | 0 | C | T | 26.7% | 249.6 / 94.2 | 136 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,706,048 | 0 | G | T | 22.5% | 388.7 / 88.3 | 146 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,781,140 | 0 | A | G | 21.4% | 143.6 / 11.2 | 70 | intergenic (+123/‑75) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,706,017 | 0 | C | T | 20.8% | 338.3 / 75.3 | 146 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| Marginal new junction evidence (lowest skew 10 of 905 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 83 (0.960) | 21 (0.290) | 20/166 | 4.3 | 23.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 68 (0.940) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 30 (0.370) | 23/188 | 4.5 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 1207790 = | 94 (1.090) | 22 (0.310) | 19/166 | 4.6 | 22.6% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 72 (1.000) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 2729955 = | NA (NA) | 30 (0.370) | 16/186 | 6.4 | NA | noncoding (1203/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729972 = | NA (NA) | noncoding (1186/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 224973 | 8 (0.090) | 30 (0.370) | 15/186 | 6.8 | 80.0% | noncoding (1203/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2729972 = | NA (NA) | noncoding (1186/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 253340 = | 109 (1.270) | 8 (0.140) +34 bp |
6/130 | 8.0 | 11.0% | intergenic (+179/‑139) | yafP/ykfJ | GNAT family putative N‑acetyltransferase/pseudogene |
| ? | NC_000913 | = 3071450 | 89 (1.030) | intergenic (‑206/+9) | fbaA/pgk | fructose‑bisphosphate aldolase, class II/phosphoglycerate kinase | |||||
| * | ? | NC_000913 | 4201782 = | 81 (0.940) | 10 (0.140) | 9/164 | 8.3 | 13.4% | intergenic (‑94/‑144) | zraP/zraS | Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR |
| ? | NC_000913 | 4201828 = | 62 (0.870) | intergenic (‑140/‑98) | zraP/zraS | Zn‑dependent periplasmic chaperone/sensory histidine kinase in two‑component regulatory system with ZraR | |||||
| * | ? | NC_000913 | = 2917925 | 115 (1.330) | 6 (0.110) +35 bp |
5/128 | 8.5 | 7.5% | noncoding (38/95 nt) | RIP202 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP202 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3706060 | NA (NA) | noncoding (98/98 nt) | RIP266 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP266 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | = 4266916 | 98 (1.140) | 4 (0.080) +39 bp |
4/120 | 8.7 | 6.3% | noncoding (29/97 nt) | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP318 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4344813 = | NA (NA) | intergenic (+23/+116) | melB/yjdF | melibiose:sodium symporter/DUF2238 family inner membrane protein | |||||
| * | ? | NC_000913 | = 3943635 | NA (NA) | 24 (0.300) | 10/184 | 8.8 | 61.8% | intergenic (+125/‑69) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037446 | 16 (0.190) | intergenic (+111/‑73) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||