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 | 31,941 | 0 | C | G | 69.5% | 367.5 / 277.3 | 238 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,939 | 0 | C | G | 68.9% | 343.5 / 283.6 | 238 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 68.9% | 347.4 / 284.2 | 238 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 8,770 | 0 | G | C | 58.3% | 145.9 / inf | 283 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 58.3% | 158.1 / inf | 283 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 58.3% | 644.6 / inf | 283 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 50.0% | 103.2 / 247.8 | 148 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 49.0% | 111.2 / 268.6 | 149 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 41.7% | 82.0 / inf | 283 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 31.2% | 612.9 / 272.0 | 232 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 30.2% | 359.4 / inf | 238 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 25.7% | 205.1 / 86.2 | 113 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 25.2% | 234.9 / 88.9 | 111 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 25.2% | 210.3 / 83.3 | 111 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.1% | 168.2 / 47.1 | 77 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,781,152 | 0 | A | G | 21.4% | 84.6 / 12.2 | 42 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase/tRNA (cytidine/uridine‑2'‑O)‑ribose methyltransferase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 62 (0.990) | 9 (0.150) | 9/404 | 4.2 | 14.0% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 51 (0.850) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 4542682 = | 63 (1.000) | 5 (0.080) | 4/404 | 6.1 | 8.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 51 (0.850) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3817697 = | 71 (1.130) | 4 (0.070) | 4/406 | 6.1 | 5.6% | intergenic (+158/‑63) | yicC/dinD | UPF0701 family protein YicC/DNA damage‑inducible protein D |
| ? | NC_000913 | 3817717 = | 67 (1.110) | intergenic (+178/‑43) | yicC/dinD | UPF0701 family protein YicC/DNA damage‑inducible protein D | |||||
| * | ? | NC_000913 | = 4472134 | 70 (1.110) | 3 (0.050) | 3/404 | 6.6 | 4.2% | coding (262/936 nt) | pyrB | aspartate carbamoyltransferase catalytic subunit |
| ? | NC_000913 | = 4472183 | 69 (1.150) | coding (213/936 nt) | pyrB | aspartate carbamoyltransferase catalytic subunit | |||||
| * | ? | NC_000913 | 4343285 = | 107 (1.700) | 3 (0.050) | 3/406 | 6.6 | 2.9% | intergenic (+19/‑84) | melA/melB | alpha‑galactosidase/melibiose:H(+)/Na(+)/Li(+) symporter |
| ? | NC_000913 | 4343311 = | 97 (1.600) | intergenic (+45/‑58) | melA/melB | alpha‑galactosidase/melibiose:H(+)/Na(+)/Li(+) symporter | |||||
| * | ? | BN000925 | = 38752 | 317 (1.070) | 5 (0.020) | 5/404 | 18.9 | 1.6% | intergenic (+238/‑6) | upf35.8/aphA | probable truncation of theoretical product due to sequence errors/aminoglycoside 3'‑phospho‑transferase |
| ? | BN000925 | = 38822 | 309 (1.090) | coding (65/774 nt) | aphA | aminoglycoside 3'‑phospho‑transferase | |||||
| * | ? | BN000925 | = 50776 | 385 (1.310) | 4 (0.010) | 4/414 | 19.8 | 1.0% | coding (321/372 nt) | traJ | TraJ oriT recognising protein |
| ? | BN000925 | = 50807 | 385 (1.330) | coding (290/372 nt) | traJ | TraJ oriT recognising protein | |||||