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_vch_tpiA | 4,296,090 | 0 | C | T | 32.4% | 23.2 / 18.6 | 34 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 32 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_vch_tpiA | 845565 = | 29 (1.160) | 4 (0.170) | 4/266 | 2.8 | 12.9% | noncoding (845565/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 845589 = | NA (NA) | noncoding (845589/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 3071319 = | 22 (0.880) | 4 (0.170) | 4/274 | 2.9 | 17.0% | noncoding (3071319/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 3071351 = | 18 (0.750) | noncoding (3071351/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 2920036 = | 21 (0.840) | 4 (0.170) | 4/272 | 2.9 | 16.3% | noncoding (2920036/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 2920054 = | 21 (0.890) | noncoding (2920054/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | = 2768828 | 20 (0.800) | 4 (0.170) | 4/274 | 2.9 | 15.6% | noncoding (12872/22030 nt) | cryptic prophage CP4‑57 | cryptic prophage CP4‑57 |
| ? | NC_000913_3_vch_tpiA | = 2768848 | 24 (1.010) | noncoding (12892/22030 nt) | cryptic prophage CP4‑57 | cryptic prophage CP4‑57 | |||||
| * | ? | NC_000913_3_vch_tpiA | = 357490 | 24 (0.960) | 4 (0.170) | 4/272 | 2.9 | 13.6% | noncoding (7/79 nt) | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_vch_tpiA | = 357506 | 28 (1.180) | noncoding (23/79 nt) | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP27 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | 103908 = | 18 (0.720) | 4 (0.170) | 4/274 | 2.9 | 19.9% | noncoding (103908/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 103936 = | 15 (0.630) | noncoding (103936/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | = 1552283 | 24 (0.960) | 3 (0.130) | 3/262 | 3.2 | 11.8% | noncoding (35/97 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_vch_tpiA | 3676223 = | 23 (1.010) | noncoding (103/161 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 | |||||
| * | ? | NC_000913_3_vch_tpiA | 4559149 = | 21 (0.840) | 3 (0.130) | 3/274 | 3.3 | 13.0% | noncoding (4559149/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 4559173 = | 20 (0.840) | noncoding (4559173/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | = 4549816 | NA (NA) | 3 (0.130) | 3/272 | 3.3 | NA | noncoding (4/36 nt) | REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_vch_tpiA | = 4549848 | NA (NA) | noncoding (36/36 nt) | REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP345 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | 3676211 = | 26 (1.040) | 3 (0.130) | 3/272 | 3.3 | 8.9% | noncoding (91/161 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 |
| ? | NC_000913_3_vch_tpiA | = 4080042 | 37 (1.560) | noncoding (23/98 nt) | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||