mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
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 | ||
| * | CP009273 | 2,860,902 | 0 | C | T | 20.0% | 55.9 / 10.1 | 30 | Q3Q (CAG→CAA) | rpoS | RNA polymerase, sigma S (sigma 38) factor |
| Marginal new junction evidence (lowest skew 10 of 83 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 694910 | 48 (1.070) | 5 (0.120) | 5/282 | 5.6 | 9.5% | noncoding (30/98 nt) | RIP61 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP61 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 2939352 = | 50 (1.170) | intergenic (‑151/+88) | tcdA/mltA | tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A | |||||
| * | ? | CP009273 | = 377125 | NA (NA) | 5 (0.120) | 5/282 | 5.6 | NA | coding (319/366 nt) | insC1 | IS2 repressor TnpA |
| ? | CP009273 | = 377151 | NA (NA) | coding (345/366 nt) | insC1 | IS2 repressor TnpA | |||||
| * | ? | CP009273 | = 4034043 | 38 (0.840) | 10 (0.230) | 5/292 | 5.7 | 18.4% | intergenic (+47/+223) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | CP009273 | = 4203090 | 51 (1.150) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | CP009273 | 2811114 = | 51 (1.130) | 5 (0.120) +TACGGAGAAT |
4/276 | 6.0 | 11.6% | intergenic (‑252/+29) | yqaB/argQ | fructose‑1‑P and 6‑phosphogluconate phosphatase/tRNA‑Arg |
| ? | CP009273 | 2811556 = | 31 (0.690) | intergenic (‑62/+1) | argZ/argY | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | CP009273 | 2939345 = | 52 (1.160) | 4 (0.090) | 4/282 | 6.1 | 8.4% | noncoding (91/97 nt) | RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP206 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 3669555 = | 38 (0.890) | noncoding (75/161 nt) | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | RIP264 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | 2936232 = | 39 (0.870) | 4 (0.090) | 4/280 | 6.1 | 9.8% | intergenic (‑306/+45) | gcvA/ygdI | glycine cleavage system transcriptional activator; autorepressor/DUF903 family verified lipoprotein |
| ? | CP009273 | 2936254 = | 37 (0.870) | intergenic (‑328/+23) | gcvA/ygdI | glycine cleavage system transcriptional activator; autorepressor/DUF903 family verified lipoprotein | |||||
| * | ? | CP009273 | 2707710 = | 42 (0.930) | 4 (0.090) | 4/282 | 6.1 | 8.2% | noncoding (69/98 nt) | RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP188 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | 2939352 = | 50 (1.170) | intergenic (‑151/+88) | tcdA/mltA | tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A | |||||
| * | ? | CP009273 | = 222485 | NA (NA) | 6 (0.140) | 4/288 | 6.2 | NA | noncoding (240/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 222502 | NA (NA) | noncoding (257/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | 3263118 = | NA (NA) | 3 (0.070) +TAAACCACGTAG |
3/272 | 6.5 | NA | noncoding (38/98 nt) | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 4460285 | NA (NA) | noncoding (88/88 nt) | RIP339 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP339 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | CP009273 | 3263118 = | NA (NA) | 3 (0.070) +TAAACCACGTAG |
3/272 | 6.5 | NA | noncoding (38/98 nt) | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP237 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 4127814 | NA (NA) | noncoding (98/98 nt) | RIP307 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP307 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||