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 | 59.5% | 207.8 / inf | 351 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 59.4% | 214.4 / inf | 352 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 59.3% | 220.0 / inf | 352 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,770 | 0 | G | C | 54.5% | 68.7 / inf | 418 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 54.5% | 55.0 / inf | 418 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 54.5% | inf / inf | 418 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 45.8% | 318.2 / inf | 342 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 45.5% | inf / inf | 418 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,215 | 0 | A | T | 44.0% | 352.1 / inf | 332 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 31,938 | 0 | C | . | 40.6% | 802.6 / inf | 347 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 40.3% | 163.5 / inf | 352 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 29.2% | 340.6 / 197.1 | 216 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 28.8% | 385.9 / 213.1 | 215 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 28.6% | 357.4 / 190.2 | 217 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | BN000925 | 38,390 | 1 | . | G | 20.2% | 1078.6 / inf | 410 | pseudogene (47/171 nt) | upf35.8 | probable truncation of theoretical product due to sequence errors |
| Marginal new junction evidence (lowest skew 10 of 35 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 807336 | 0 (0.000) | 86 (0.620) +G |
34/424 | 3.5 | 59.0% | intergenic (‑55/+97) | ybhC/ybhB | outer membrane lipoprotein YhbC/putative kinase inhibitor |
| ? | NC_000913 | = 4171849 | 120 (0.870) | intergenic (+93/‑208) | rrfB/murB | 5S ribosomal RNA/UDP‑N‑acetylenolpyruvoylglucosamine reductase | |||||
| * | ? | NC_000913 | = 1207805 | 171 (1.230) | 34 (0.270) | 29/394 | 3.8 | 20.7% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 102 (0.800) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 807336 | 0 (0.000) | 43 (0.310) +G |
21/424 | 5.8 | 43.1% | intergenic (‑55/+97) | ybhC/ybhB | outer membrane lipoprotein YhbC/putative kinase inhibitor |
| ? | NC_000913 | = 4040729 | 114 (0.820) | intergenic (+93/+177) | rrfA/mobB | 5S ribosomal RNA/molybdopterin‑guanine dinucleotide biosynthesis adaptor protein | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 26 (0.200) | 16/408 | 6.8 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 807336 | 0 (0.000) | 26 (0.190) +G |
11/424 | 8.7 | 28.5% | intergenic (‑55/+97) | ybhC/ybhB | outer membrane lipoprotein YhbC/putative kinase inhibitor |
| ? | NC_000913 | 3423330 = | 131 (0.950) | intergenic (+136/+93) | yhdZ/rrfF | putative ABC transporter ATP‑binding subunit YhdZ/5S ribosomal RNA | |||||
| * | ? | NC_000913 | = 4409634 | 153 (1.100) | 3 (0.030) +63 bp |
3/300 | 10.5 | 2.7% | coding (360/732 nt) | rlmB | 23S rRNA 2'‑O‑ribose G2251 methyltransferase |
| ? | NC_000913 | 4409698 = | 152 (1.100) | coding (424/732 nt) | rlmB | 23S rRNA 2'‑O‑ribose G2251 methyltransferase | |||||
| * | ? | NC_000913 | 285874 = | 126 (0.910) | 5 (0.040) | 5/410 | 11.2 | 3.9% | coding (480/1383 nt) | yagG | putative D‑xylonate transporter YagG |
| ? | NC_000913 | 285896 = | 123 (0.920) | coding (502/1383 nt) | yagG | putative D‑xylonate transporter YagG | |||||
| * | ? | NC_000913 | = 1209618 | 103 (0.740) | 4 (0.030) | 4/396 | 11.6 | 3.5% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 127 (0.990) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | = 2573735 | 119 (0.860) | 4 (0.030) | 4/404 | 11.8 | 3.7% | coding (571/804 nt) | eutT | putative ethanolamine utilization cobalamin adenosyltransferase |
| ? | NC_000913 | = 2573889 | 94 (0.720) | coding (417/804 nt) | eutT | putative ethanolamine utilization cobalamin adenosyltransferase | |||||
| * | ? | NC_000913 | = 1082873 | 158 (1.140) | 4 (0.030) | 4/406 | 11.8 | 2.9% | coding (631/1128 nt) | efeO | ferrous iron transport system protein EfeO |
| ? | NC_000913 | = 1083021 | 117 (0.890) | coding (779/1128 nt) | efeO | ferrous iron transport system protein EfeO | |||||