mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 3,875,521 | 0 | T | C | 34.1% | 101.5 / 43.6 | 86 | A28A (GCT→GCC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,522 | 0 | C | G | 33.3% | 123.5 / 42.7 | 86 | L29V (CTG→GTG) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,268 | 0 | T | C | 28.3% | 108.8 / 35.3 | 63 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,525 | 0 | G | T | 23.6% | 172.0 / 16.0 | 90 | V30F (GTT→TTT) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,529 | 0 | C | G | 21.2% | 173.8 / 34.6 | 87 | S31C (TCC→TGC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,531 | 0 | C | T | 21.2% | 168.0 / 14.9 | 87 | H32Y (CAT→TAT) | yidX | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 781147 = | 94 (0.780) | 3 (0.030) | 3/416 | 10.9 | 3.9% | noncoding (1/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | = 781576 | 79 (0.900) | intergenic (+132/‑1) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_000913 | = 4542690 | 36 (0.300) | 6 (0.050) | 6/550 | 11.0 | 10.1% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 72 (0.620) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 251809 = | 136 (1.130) | 7 (0.060) | 6/552 | 11.1 | 5.2% | coding (912/1056 nt) | dinB | DNA polymerase IV |
| ? | NC_000913 | 251873 = | 123 (1.050) | coding (976/1056 nt) | dinB | DNA polymerase IV | |||||
| * | ? | NC_000913 | = 3220246 | 118 (0.980) | 4 (0.030) | 4/548 | 12.3 | 3.1% | coding (753/1380 nt) | patA | putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent |
| ? | NC_000913 | = 3220398 | 136 (1.170) | coding (905/1380 nt) | patA | putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent | |||||
| * | ? | NC_000913 | 1484129 = | 85 (0.710) | 4 (0.030) | 4/550 | 12.3 | 4.5% | coding (1069/3903 nt) | hrpA | putative ATP‑dependent helicase |
| ? | NC_000913 | 1484164 = | 88 (0.760) | coding (1104/3903 nt) | hrpA | putative ATP‑dependent helicase | |||||
| * | ? | NC_000913 | = 2616536 | 106 (0.880) | 4 (0.030) | 4/556 | 12.4 | 3.7% | coding (443/1464 nt) | bepA | OM protein maintenance and assembly metalloprotease and chaperone, periplasmic |
| ? | NC_000913 | = 2616560 | 106 (0.900) | coding (467/1464 nt) | bepA | OM protein maintenance and assembly metalloprotease and chaperone, periplasmic | |||||
| * | ? | NC_000913 | = 2531965 | 143 (1.190) | 3 (0.030) | 3/548 | 13.0 | 2.0% | coding (503/762 nt) | cysZ | sulfate transporter, sulfite inhibited |
| ? | NC_000913 | = 2532167 | 151 (1.300) | coding (705/762 nt) | cysZ | sulfate transporter, sulfite inhibited | |||||
| * | ? | NC_000913 | 4440865 = | 164 (1.370) | 3 (0.030) | 3/556 | 13.1 | 1.7% | coding (351/1344 nt) | ytfL | UPF0053 family inner membrane protein |
| ? | NC_000913 | 4441132 = | 179 (1.520) | coding (84/1344 nt) | ytfL | UPF0053 family inner membrane protein | |||||
| * | ? | NC_000913 | = 2487714 | 143 (1.190) | 3 (0.030) | 3/550 | 13.1 | 2.1% | coding (3341/3594 nt) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| ? | NC_000913 | = 2487729 | 142 (1.220) | coding (3356/3594 nt) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA | |||||
| * | ? | NC_000913 | 2275832 = | 106 (0.880) | 3 (0.030) | 3/552 | 13.1 | 2.9% | coding (560/1026 nt) | yejE | microcin C ABC transporter permease |
| ? | NC_000913 | 2275868 = | 98 (0.840) | coding (596/1026 nt) | yejE | microcin C ABC transporter permease | |||||