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_tpiA | 4,295,976 | 0 | C | T | 32.7% | 54.4 / 28.7 | 52 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_pae_tpiA | 4,262,166 | 0 | G | C | 22.7% | 28.7 / 12.2 | 22 | G194G (GGG→GGC) | dusA | tRNA‑dihydrouridine synthase A |
| * | NC_000913_3_pae_tpiA | 4,262,171 | 0 | G | C | 21.7% | 35.5 / 11.4 | 23 | S196T (AGC→ACC) | dusA | tRNA‑dihydrouridine synthase A |
| Marginal new junction evidence (lowest skew 10 of 144 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_pae_tpiA | 2729630 = | NA (NA) | 11 (0.290) | 7/274 | 4.0 | NA | noncoding (1528/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_pae_tpiA | 2729652 = | NA (NA) | noncoding (1506/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_pae_tpiA | 225154 = | NA (NA) | 7 (0.190) | 7/274 | 4.0 | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2430968 | NA (NA) | 6 (0.170) +GTTCACTGTAG |
6/262 | 4.2 | NA | noncoding (40/84 nt) | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_tpiA | = 2662574 | NA (NA) | noncoding (266/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2430968 | NA (NA) | 6 (0.170) +GTTCACTGTAG |
6/262 | 4.2 | 15.3% | noncoding (40/84 nt) | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_tpiA | = 2662483 | 36 (0.920) | noncoding (175/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | = 2430968 | NA (NA) | 6 (0.170) +GTTCACTGTAG |
6/262 | 4.2 | 10.4% | noncoding (40/84 nt) | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_pae_tpiA | = 2662392 | 56 (1.430) | noncoding (84/266 nt) | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913_3_pae_tpiA | 274620 = | NA (NA) | 6 (0.160) | 6/266 | 4.2 | NA | coding (498/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | NC_000913_3_pae_tpiA | 274663 = | NA (NA) | coding (455/1017 nt) | insH1 | IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3946053 | 3 (0.080) | 7 (0.180) | 6/276 | 4.4 | 70.6% | noncoding (2350/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_pae_tpiA | = 3946069 | NA (NA) | noncoding (2366/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913_3_pae_tpiA | = 228108 | NA (NA) | 7 (0.180) | 6/276 | 4.4 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_pae_tpiA | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_pae_tpiA | 3123452 = | 37 (0.940) | 5 (0.130) | 5/270 | 4.7 | 11.9% | coding (354/2172 nt) | glcB | malate synthase G |
| ? | NC_000913_3_pae_tpiA | 3123480 = | 39 (1.050) | coding (326/2172 nt) | glcB | malate synthase G | |||||
| * | ? | NC_000913_3_pae_tpiA | = 3056971 | 44 (1.120) | 5 (0.140) | 5/268 | 4.7 | 10.8% | noncoding (123/140 nt) | sibC | sRNA antisense regulator of toxic IbsC protein |
| ? | NC_000913_3_pae_tpiA | = 3056979 | 41 (1.110) | noncoding (131/140 nt) | sibC | sRNA antisense regulator of toxic IbsC protein | |||||