mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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_bme_pgi | 4,296,061 | 0 | C | T | 33.3% | 66.2 / 54.8 | 69 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_bme_pgi | 526,796 | 0 | C | G | 29.3% | 130.4 / 76.2 | 84 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,792 | 0 | A | C | 28.6% | 107.4 / 61.9 | 85 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,800 | 0 | A | G | 28.1% | 124.4 / 52.8 | 82 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 102 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_bme_pgi | = 4542691 | 41 (0.860) | 9 (0.200) | 9/266 | 4.2 | 19.9% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_bme_pgi | = 4542987 | 34 (0.760) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_bme_pgi | 4542683 = | 40 (0.840) | 10 (0.220) | 9/266 | 4.2 | 21.4% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913_3_bme_pgi | 4542997 = | 36 (0.810) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913_3_bme_pgi | = 2304902 | 24 (0.500) | 6 (0.160) +33 bp |
4/218 | 5.3 | 24.6% | 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_bme_pgi | = 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_bme_pgi | = 2304676 | 20 (0.420) | 6 (0.160) +33 bp |
4/218 | 5.3 | 28.1% | 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_bme_pgi | = 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_bme_pgi | 411131 = | 66 (1.390) | 5 (0.130) +25 bp |
4/234 | 5.7 | 8.4% | noncoding (54/191 nt) | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP35 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913_3_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 2597712 | NA (NA) | 4 (0.110) +31 bp |
3/222 | 6.0 | NA | noncoding (40/46 nt) | REP181 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP181 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | 1113487 = | 52 (1.090) | 4 (0.110) +31 bp |
3/222 | 6.0 | 9.0% | noncoding (71/98 nt) | RIP97 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP97 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 2673805 | NA (NA) | 4 (0.110) +29 bp |
3/226 | 6.1 | NA | noncoding (30/34 nt) | REP185 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP185 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 1552278 | 51 (1.070) | 4 (0.110) +29 bp |
3/226 | 6.1 | 9.0% | noncoding (30/97 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_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||
| * | ? | NC_000913_3_bme_pgi | = 1552100 | 38 (0.800) | 4 (0.110) +29 bp |
3/226 | 6.1 | 11.7% | noncoding (30/97 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_bme_pgi | 4235376 = | NA (NA) | intergenic (‑2143/‑531) | lysC/yjbE | lysine‑sensitive aspartokinase 3/extracellular polysaccharide production threonine‑rich protein | |||||