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 | 22.5% | 54.1 / 14.5 | 41 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_vch_tpiA | 4,314,263 | 0 | A | T | 20.8% | 38.7 / 10.2 | 24 | intergenic (+36/+111) | yjdP/phnP | putative periplasmic protein/5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase |
| Marginal new junction evidence (lowest skew 10 of 143 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_vch_tpiA | 4434593 = | 31 (0.980) | 5 (0.170) | 5/272 | 3.6 | 15.1% | noncoding (68/111 nt) | REP334 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP334 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_vch_tpiA | 4434620 = | 27 (0.900) | noncoding (95/111 nt) | REP334 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP334 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | 508586 = | NA (NA) | 5 (0.170) | 5/274 | 3.6 | 12.2% | noncoding (5/236 nt) | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences | REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences |
| ? | NC_000913_3_vch_tpiA | 3512601 = | 36 (1.200) | noncoding (3512601/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 3220880 = | NA (NA) | 4 (0.140) | 4/264 | 3.9 | NA | noncoding (1/31 nt) | REP230 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP230 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_vch_tpiA | 3220911 = | NA (NA) | noncoding (3220911/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 2041152 = | NA (NA) | 4 (0.130) | 4/272 | 4.0 | NA | noncoding (1/34 nt) | REP142 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP142 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913_3_vch_tpiA | 2041182 = | NA (NA) | noncoding (31/34 nt) | REP142 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP142 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | = 944911 | 34 (1.080) | 4 (0.130) | 4/272 | 4.0 | 10.5% | noncoding (944911/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | = 944917 | 36 (1.210) | noncoding (944917/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | = 3255287 | NA (NA) | 6 (0.200) | 4/276 | 4.1 | NA | noncoding (71/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_vch_tpiA | = 3255319 | NA (NA) | noncoding (103/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | 2549564 = | 43 (1.430) | 4 (0.130) | 4/274 | 4.1 | 8.5% | noncoding (2549564/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | = 3216674 | NA (NA) | noncoding (74/78 nt) | REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_vch_tpiA | 2549534 = | 45 (1.420) | 4 (0.130) | 4/274 | 4.1 | 8.5% | noncoding (69/98 nt) | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP176 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913_3_vch_tpiA | 2549564 = | 43 (1.430) | noncoding (2549564/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 1789958 = | 32 (1.010) | 4 (0.130) | 4/276 | 4.1 | 11.7% | noncoding (1789958/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 1789979 = | 30 (0.990) | noncoding (1789979/4641682 nt) | repeat_region | repeat region | |||||
| * | ? | NC_000913_3_vch_tpiA | 1667396 = | 34 (1.080) | 4 (0.130) | 4/278 | 4.1 | 10.7% | noncoding (1667396/4641682 nt) | repeat_region | repeat region |
| ? | NC_000913_3_vch_tpiA | 1667427 = | 34 (1.110) | noncoding (1667427/4641682 nt) | repeat_region | repeat region | |||||