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 | ||
| * | BN000925 | 31,939 | 0 | C | G | 60.3% | 323.3 / inf | 469 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 8,771 | 0 | C | G | 60.1% | 357.1 / inf | 529 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 60.0% | 354.2 / inf | 529 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 60.0% | inf / inf | 529 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,941 | 0 | C | G | 60.0% | 331.6 / inf | 474 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 59.9% | 314.1 / inf | 474 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,221 | 0 | T | C | 44.9% | 243.7 / inf | 256 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 44.0% | 260.3 / inf | 258 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 31,941 | 1 | . | G | 39.9% | 247.9 / inf | 474 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,938 | 0 | C | . | 39.7% | inf / inf | 464 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,767 | 1 | . | C | 39.7% | 272.4 / inf | 529 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,472 | 0 | G | A | 22.0% | 379.3 / 110.9 | 173 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 21.8% | 407.2 / 118.3 | 170 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 21.8% | 386.2 / 107.3 | 170 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 48 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 13 (0.130) | 10/410 | 6.2 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1430276 = | 79 (0.750) | 10 (0.100) | 9/410 | 6.6 | 10.4% | coding (1228/3363 nt) | stfR | Rac prophage; putative membrane protein |
| ? | NC_000913 | 1430422 = | 96 (0.960) | coding (1374/3363 nt) | stfR | Rac prophage; putative membrane protein | |||||
| * | ? | NC_000913 | 3220520 = | 106 (1.010) | 9 (0.090) | 8/410 | 6.9 | 8.5% | coding (1027/1380 nt) | patA | putrescine aminotransferase |
| ? | NC_000913 | 3220730 = | 92 (0.920) | coding (1237/1380 nt) | patA | putrescine aminotransferase | |||||
| * | ? | NC_000913 | = 4542690 | 86 (0.820) | 6 (0.060) | 6/410 | 7.8 | 6.1% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 103 (1.030) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 447227 | 131 (1.250) | 3 (0.040) +39 bp |
3/350 | 8.6 | 2.9% | coding (479/891 nt) | cyoE | heme O synthase |
| ? | NC_000913 | 447267 = | 117 (1.120) | coding (439/891 nt) | cyoE | heme O synthase | |||||
| * | ? | NC_000913 | 3817697 = | 106 (1.010) | 4 (0.040) | 4/412 | 8.8 | 3.8% | intergenic (+158/‑63) | yicC/dinD | UPF0701 family protein YicC/DNA damage‑inducible protein D |
| ? | NC_000913 | 3817717 = | 102 (1.010) | intergenic (+178/‑43) | yicC/dinD | UPF0701 family protein YicC/DNA damage‑inducible protein D | |||||
| * | ? | NC_000913 | = 2547356 | 118 (1.130) | 4 (0.040) | 4/410 | 8.8 | 3.4% | coding (684/1425 nt) | murP | N‑acetylmuramic acid‑specific PTS enzyme IICB component/anhydro‑N‑acetylmuramic acid transporter |
| ? | NC_000913 | = 2547371 | 112 (1.120) | coding (699/1425 nt) | murP | N‑acetylmuramic acid‑specific PTS enzyme IICB component/anhydro‑N‑acetylmuramic acid transporter | |||||
| * | ? | NC_000913 | = 1798782 | 56 (0.530) | 4 (0.040) | 4/412 | 8.8 | 6.7% | coding (161/984 nt) | pheS | phenylalanine‑‑tRNA ligase subunit alpha |
| ? | NC_000913 | = 1798795 | 58 (0.570) | coding (148/984 nt) | pheS | phenylalanine‑‑tRNA ligase subunit alpha | |||||
| * | ? | NC_000913 | = 1395088 | 95 (0.910) | 4 (0.040) | 4/414 | 8.8 | 4.1% | coding (835/1032 nt) | ynaI | small conductance mechanosensitive channel YnaI |
| ? | NC_000913 | = 1395094 | 95 (0.940) | coding (829/1032 nt) | ynaI | small conductance mechanosensitive channel YnaI | |||||
| * | ? | NC_000913 | 1342990 = | 131 (1.250) | 3 (0.030) | 3/376 | 8.9 | 2.6% | intergenic (+6/+120) | yciH/osmB | putative translation factor/osmotically‑inducible lipoprotein OsmB |
| ? | NC_000913 | 1343016 = | 107 (1.160) | intergenic (+32/+94) | yciH/osmB | putative translation factor/osmotically‑inducible lipoprotein OsmB | |||||