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_pgi | 4,295,320 | 0 | C | T | 30.6% | 53.5 / 32.9 | 49 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_pgi | 526,800 | 0 | A | G | 28.3% | 94.3 / 31.6 | 53 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,796 | 0 | C | G | 26.9% | 106.6 / 40.1 | 52 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 526,792 | 0 | A | C | 26.4% | 87.2 / 34.2 | 53 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_pae_pgi | 3,180,505 | 0 | G | T | 22.9% | 53.2 / 15.8 | 35 | E29* (GAG→TAG) ‡ | ygiC | ATP‑Grasp family ATPase |
| * | NC_000913_3_pae_pgi | 3,180,506 | 0 | A | C | 22.2% | 50.9 / 19.3 | 36 | E29A (GAG→GCG) ‡ | ygiC | ATP‑Grasp family ATPase |
| * | NC_000913_3_pae_pgi | 3,180,513 | 1 | . | A | 20.6% | 84.2 / 26.9 | 34 | coding (93/1161 nt) | ygiC | ATP‑Grasp family ATPase |
| Marginal new junction evidence (lowest skew 10 of 105 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_pgi | 1228743 = | 23 (0.780) | 5 (0.180) | 5/262 | 3.1 | 18.7% | intergenic (+5/‑72) | ycgM/ycgN | putative isomerase/hydrolase/UPF0153 family cysteine cluster protein |
| ? | NC_000913_3_pae_pgi | 1228770 = | 22 (0.810) | intergenic (+32/‑45) | ycgM/ycgN | putative isomerase/hydrolase/UPF0153 family cysteine cluster protein | |||||
| * | ? | NC_000913_3_pae_pgi | 59616 = | 39 (1.330) | 5 (0.180) | 5/264 | 3.1 | 11.8% | intergenic (+337/+71) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913_3_pae_pgi | 59638 = | 38 (1.380) | intergenic (+359/+49) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913_3_pae_pgi | = 4094602 | 52 (1.770) | 5 (0.180) | 5/268 | 3.2 | 8.8% | 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_pgi | = 4094618 | 54 (1.940) | 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_pgi | 225154 = | NA (NA) | 5 (0.180) | 5/272 | 3.2 | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_pgi | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_pgi | = 3376260 | 23 (0.780) | 4 (0.150) | 4/258 | 3.4 | 16.7% | intergenic (+24/+19) | dcuD/sspB | putative transporter/ClpXP protease specificity enhancing factor |
| ? | NC_000913_3_pae_pgi | = 3376265 | 19 (0.710) | intergenic (+29/+14) | dcuD/sspB | putative transporter/ClpXP protease specificity enhancing factor | |||||
| * | ? | NC_000913_3_pae_pgi | 3982818 = | 28 (0.950) | 4 (0.140) | 4/266 | 3.5 | 12.4% | intergenic (+7/‑140) | proM/aslB | tRNA‑Pro/putative AslA‑specific sulfatase‑maturating enzyme |
| ? | NC_000913_3_pae_pgi | 3982838 = | 30 (1.080) | intergenic (+27/‑120) | proM/aslB | tRNA‑Pro/putative AslA‑specific sulfatase‑maturating enzyme | |||||
| * | ? | NC_000913_3_pae_pgi | 3305904 = | 53 (1.810) | 4 (0.150) | 4/264 | 3.5 | 7.3% | intergenic (‑87/+67) | mtr/deaD | tryptophan transporter of high affinity/ATP‑dependent RNA helicase |
| ? | NC_000913_3_pae_pgi | 3305929 = | 52 (1.890) | intergenic (‑112/+42) | mtr/deaD | tryptophan transporter of high affinity/ATP‑dependent RNA helicase | |||||
| * | ? | NC_000913_3_pae_pgi | 3221823 = | 24 (0.820) | 5 (0.180) | 4/266 | 3.5 | 15.2% | coding (358/984 nt) | ebgR | transcriptional repressor |
| ? | NC_000913_3_pae_pgi | 3221880 = | 33 (1.190) | coding (415/984 nt) | ebgR | transcriptional repressor | |||||
| * | ? | NC_000913_3_pae_pgi | 3106981 = | 29 (0.990) | 4 (0.150) | 4/260 | 3.5 | 13.2% | intergenic (+11/+39) | nupG/speC | nucleoside transporter/ornithine decarboxylase, constitutive |
| ? | NC_000913_3_pae_pgi | 3107013 = | 26 (0.960) | intergenic (+43/+7) | nupG/speC | nucleoside transporter/ornithine decarboxylase, constitutive | |||||
| * | ? | NC_000913_3_pae_pgi | 2192996 = | 27 (0.920) | 4 (0.150) | 4/262 | 3.5 | 13.8% | intergenic (‑200/+63) | yehE/mrp | DUF2574 family protein/antiporter inner membrane protein |
| ? | NC_000913_3_pae_pgi | 2193031 = | 25 (0.920) | intergenic (‑235/+28) | yehE/mrp | DUF2574 family protein/antiporter inner membrane protein | |||||