mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
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 | 4,296,268 | 0 | T | C | 39.1% | 60.7 / 33.6 | 52 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,186,093 | 0 | T | G | 26.3% | 38.9 / 13.5 | 19 | intergenic (+3/‑94) | yqiG/insC1 | pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein/IS2 repressor TnpA |
| * | NC_000913 | 526,792 | 0 | A | C | 21.1% | 320.2 / 85.6 | 153 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913 | 526,796 | 0 | C | G | 20.9% | 386.0 / 98.3 | 150 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| Marginal new junction evidence (lowest skew 10 of 52 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 26 (0.210) | 26/522 | 4.2 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 3836120 | 197 (1.530) | 27 (0.210) | 24/530 | 4.7 | 12.0% | intergenic (‑191/‑102) | yicJ/selC | putative transporter/tRNA‑Sec |
| ? | NC_000913 | 4498181 = | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1978502 | 0 (0.000) | 24 (0.190) | 22/514 | 5.0 | 100% | intergenic (‑305/+16) | flhD/insB1 | flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B |
| ? | NC_000913 | 1979279 = | 0 (0.000) | intergenic (‑64/‑474) | insA/uspC | IS1 repressor TnpA/universal stress protein | |||||
| * | ? | NC_000913 | = 3759614 | 576 (4.650) | 33 (0.260) +CCA |
6/506 | 10.4 | 5.3% | coding (248/1845 nt) | selB | selenocysteinyl‑tRNA‑specific translation factor |
| ? | NC_000913 | 3759615 = | 595 (4.640) | coding (247/1845 nt) | selB | selenocysteinyl‑tRNA‑specific translation factor | |||||
| * | ? | NC_000913 | = 3583772 | NA (NA) | 6 (0.050) | 6/506 | 10.4 | 2.9% | noncoding (345/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 3844612 | 212 (1.650) | coding (649/1767 nt) | adeD | cryptic adenine deaminase | |||||
| * | ? | NC_000913 | 4516891 = | 103 (0.800) | 6 (0.050) | 6/512 | 10.5 | 5.7% | coding (827/954 nt) | fecR | anti‑sigma transmembrane signal transducer for ferric citrate transport; periplasmic FecA‑bound ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator |
| ? | NC_000913 | 4516925 = | 99 (0.800) | coding (793/954 nt) | fecR | anti‑sigma transmembrane signal transducer for ferric citrate transport; periplasmic FecA‑bound ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator | |||||
| * | ? | NC_000913 | 3810798 = | 590 (4.600) | 5 (0.040) | 5/516 | 11.1 | 0.89% | coding (355/810 nt) | mutM | formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase |
| ? | NC_000913 | 3810824 = | 543 (4.350) | coding (329/810 nt) | mutM | formamidopyrimidine/5‑formyluracil/ 5‑hydroxymethyluracil DNA glycosylase | |||||
| * | ? | NC_000913 | = 2943600 | 134 (1.040) | 5 (0.040) | 5/514 | 11.1 | 3.8% | coding (264/1206 nt) | csdA | cysteine sulfinate desulfinase |
| ? | NC_000913 | = 2943639 | 123 (0.990) | coding (303/1206 nt) | csdA | cysteine sulfinate desulfinase | |||||
| * | ? | NC_000913 | = 3786644 | 700 (5.450) | 6 (0.050) | 5/530 | 11.3 | 0.85% | coding (1385/1545 nt) | gpmM | phosphoglycero mutase III, cofactor‑independent |
| ? | NC_000913 | 3786648 = | 697 (5.430) | coding (1389/1545 nt) | gpmM | phosphoglycero mutase III, cofactor‑independent | |||||
| * | ? | NC_000913 | 3817574 = | 646 (5.030) | 4 (0.030) | 4/512 | 11.7 | 0.65% | intergenic (+35/‑186) | yicC/dinD | UPF0701 family protein/DNA damage‑inducible protein |
| ? | NC_000913 | 3817604 = | 591 (4.770) | intergenic (+65/‑156) | yicC/dinD | UPF0701 family protein/DNA damage‑inducible protein | |||||