mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 4,296,060 | 0 | C | T | 37.5% | 40.2 / 63.0 | 66 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,549,610 | 0 | G | T | 22.7% | 98.4 / 13.3 | 66 | W737L (TGG→TTG) | fdnG | formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
| * | NC_000913 | 1,549,595 | 0 | C | A | 21.7% | 119.9 / 13.9 | 69 | T732N (ACC→AAC) | fdnG | formate dehydrogenase‑N, alpha subunit, nitrate‑inducible |
| Marginal new junction evidence (lowest skew 10 of 108 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 47 (0.580) | 10 (0.140) | 9/264 | 7.2 | 16.0% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 63 (0.880) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1207790 = | 49 (0.610) | 8 (0.110) | 8/264 | 7.6 | 12.8% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 65 (0.910) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4542690 | 118 (1.460) | 8 (0.110) | 8/278 | 7.9 | 7.2% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 95 (1.260) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 123 (1.530) | 9 (0.120) | 8/278 | 7.9 | 7.8% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 97 (1.280) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1825935 | 83 (1.030) | 6 (0.080) | 6/274 | 8.8 | 7.0% | intergenic (‑310/+20) | spy/astE | periplasmic ATP‑independent protein refolding chaperone, stress‑induced/succinylglutamate desuccinylase |
| ? | NC_000913 | = 1825939 | 82 (1.100) | intergenic (‑314/+16) | spy/astE | periplasmic ATP‑independent protein refolding chaperone, stress‑induced/succinylglutamate desuccinylase | |||||
| * | ? | NC_000913 | 639521 = | 99 (1.230) | 7 (0.090) | 6/288 | 9.2 | 6.4% | intergenic (+13/‑232) | ahpC/ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| ? | NC_000913 | 639622 = | 108 (1.380) | intergenic (+114/‑131) | ahpC/ahpF | alkyl hydroperoxide reductase, C22 subunit/alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding | |||||
| * | ? | NC_000913 | 2057582 = | 105 (1.300) | 5 (0.070) | 5/270 | 9.3 | 5.1% | intergenic (+8/+445) | yeeN/asnW | UPF0082 family protein/tRNA‑Asn |
| ? | NC_000913 | 2057617 = | 90 (1.230) | intergenic (+43/+410) | yeeN/asnW | UPF0082 family protein/tRNA‑Asn | |||||
| * | ? | NC_000913 | = 3299608 | 85 (1.060) | 6 (0.080) | 5/276 | 9.4 | 7.5% | coding (308/444 nt) | yhbP | UPF0306 family protein |
| ? | NC_000913 | = 3299630 | 68 (0.910) | coding (286/444 nt) | yhbP | UPF0306 family protein | |||||
| * | ? | NC_000913 | 3083831 = | 101 (1.250) | 5 (0.070) | 5/278 | 9.5 | 4.8% | intergenic (‑34/+104) | speB/speA | agmatinase/biosynthetic arginine decarboxylase, PLP‑binding |
| ? | NC_000913 | 3083868 = | 102 (1.350) | intergenic (‑71/+67) | speB/speA | agmatinase/biosynthetic arginine decarboxylase, PLP‑binding | |||||
| * | ? | NC_000913 | 4321860 = | 82 (1.020) | 5 (0.060) | 5/284 | 9.6 | 5.9% | coding (563/726 nt) | phnF | putative DNA‑binding transcriptional regulator of phosphonate uptake and biodegradation |
| ? | NC_000913 | 4321892 = | 80 (1.040) | coding (531/726 nt) | phnF | putative DNA‑binding transcriptional regulator of phosphonate uptake and biodegradation | |||||