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_hsa_pgi | 4,296,088 | 0 | C | T | 38.1% | 164.9 / 220.5 | 218 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_pgi | 526,792 | 0 | A | C | 27.1% | 543.2 / 255.7 | 363 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_hsa_pgi | 526,796 | 0 | C | G | 25.4% | 691.3 / 258.3 | 354 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_hsa_pgi | 1,708,901 | 0 | A | C | 24.5% | 121.9 / 14.8 | 114 | R661R (CGA→CGC) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | NC_000913_3_hsa_pgi | 526,800 | 0 | A | G | 23.7% | 616.7 / 210.1 | 345 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_hsa_pgi | 4,037,227 | 0 | G | T | 23.7% | 52.0 / 13.8 | 38 | intergenic (+10/‑33) | ileT/alaT | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913_3_hsa_pgi | 422,429 | 0 | T | G | 23.3% | 333.6 / 27.4 | 198 | intergenic (+70/‑89) | proY/malZ | proline‑specific permease/maltodextrin glucosidase |
| * | NC_000913_3_hsa_pgi | 1,287,268 | 0 | C | A | 22.4% | 335.9 / 12.0 | 175 | noncoding (61/85 nt) | tyrV | tRNA‑Tyr |
| * | NC_000913_3_hsa_pgi | 4,037,226 | 0 | C | G | 21.9% | 64.6 / 21.5 | 41 | intergenic (+9/‑34) | ileT/alaT | tRNA‑Ile/tRNA‑Ala |
| * | NC_000913_3_hsa_pgi | 2,560,996 | 0 | G | T | 21.9% | 251.0 / 14.7 | 152 | intergenic (+98/‑372) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| * | NC_000913_3_hsa_pgi | 4,037,225 | 0 | A | C | 20.9% | 64.2 / 20.4 | 43 | intergenic (+8/‑35) | ileT/alaT | tRNA‑Ile/tRNA‑Ala |
| Marginal new junction evidence (lowest skew 10 of 729 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_pgi | 1207790 = | 142 (0.540) | 79 (0.340) | 68/266 | 7.7 | 37.9% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_hsa_pgi | 1209619 = | 132 (0.560) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_hsa_pgi | = 1207805 | 130 (0.490) | 79 (0.340) | 63/266 | 8.8 | 39.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_hsa_pgi | = 1209602 | 126 (0.540) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_hsa_pgi | 781369 = | 170 (0.640) | 29 (0.110) +GAAG |
15/290 | 29.2 | 19.2% | noncoding (1/76 nt) | lysZ | tRNA‑Lys |
| ? | NC_000913_3_hsa_pgi | = 2521006 | 80 (0.300) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913_3_hsa_pgi | = 2357873 | 190 (0.720) | 18 (0.070) | 15/298 | 29.7 | 8.5% | pseudogene (70/198 nt) | ypaA | pseudogene, C‑terminal fragment, Transposase_31 family |
| ? | NC_000913_3_hsa_pgi | 2357886 = | 199 (0.750) | pseudogene (83/198 nt) | ypaA | pseudogene, C‑terminal fragment, Transposase_31 family | |||||
| * | ? | NC_000913_3_hsa_pgi | 274620 = | NA (NA) | 31 (0.130) | 13/280 | 29.8 | NA | coding (498/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | NC_000913_3_hsa_pgi | 274663 = | NA (NA) | coding (455/1017 nt) | insH1 | IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913_3_hsa_pgi | = 4459383 | 298 (1.130) | 13 (0.050) | 13/286 | 30.2 | 4.2% | intergenic (+44/‑135) | pmbA/cybC | putative antibiotic peptide MccB17 maturation peptidase/pseudogene, truncated cytochrome b562; cytochrome b(562) |
| ? | NC_000913_3_hsa_pgi | = 4459497 | 308 (1.220) | intergenic (+158/‑21) | pmbA/cybC | putative antibiotic peptide MccB17 maturation peptidase/pseudogene, truncated cytochrome b562; cytochrome b(562) | |||||
| * | ? | NC_000913_3_hsa_pgi | 781577 = | 206 (0.780) | 72 (0.280) +GAAG |
12/290 | 31.2 | 34.1% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913_3_hsa_pgi | = 2521006 | 80 (0.300) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913_3_hsa_pgi | 780554 = | 293 (1.110) | 26 (0.100) +GAAG |
12/290 | 31.2 | 12.5% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913_3_hsa_pgi | = 2521006 | 80 (0.300) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913_3_hsa_pgi | 618054 = | 276 (1.050) | 11 (0.050) | 10/272 | 31.4 | 4.2% | intergenic (+16/‑200) | entF/fepE | enterobactin synthase multienzyme complex component, ATP‑dependent/regulator of length of O‑antigen component of lipopolysaccharide chains |
| ? | NC_000913_3_hsa_pgi | 618087 = | 251 (1.040) | intergenic (+49/‑167) | entF/fepE | enterobactin synthase multienzyme complex component, ATP‑dependent/regulator of length of O‑antigen component of lipopolysaccharide chains | |||||
| * | ? | NC_000913_3_hsa_pgi | = 368554 | 305 (1.160) | 12 (0.050) | 11/284 | 31.5 | 4.1% | intergenic (‑134/‑57) | mhpR/mhpA | mhp operon transcriptional activator/3‑(3‑hydroxyphenyl)propionate hydroxylase |
| ? | NC_000913_3_hsa_pgi | = 368583 | 275 (1.090) | intergenic (‑163/‑28) | mhpR/mhpA | mhp operon transcriptional activator/3‑(3‑hydroxyphenyl)propionate hydroxylase | |||||