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 | 63.3% | 314.6 / inf | 335 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 63.3% | 327.1 / inf | 335 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 63.3% | 325.1 / inf | 335 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,770 | 0 | G | C | 61.4% | 313.8 / inf | 381 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 61.4% | 306.8 / inf | 381 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 61.4% | 893.0 / inf | 381 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 47.1% | 196.7 / inf | 240 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 46.8% | 202.9 / inf | 235 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 38.6% | 271.5 / inf | 381 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 37.2% | 803.1 / inf | 332 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 36.7% | 306.7 / inf | 335 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 31.3% | 234.6 / 152.0 | 163 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 31.1% | 261.7 / 171.2 | 161 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 31.1% | 243.7 / 147.2 | 161 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 10 (0.110) | 9/412 | 6.7 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4373269 | NA (NA) | 5 (0.050) | 5/418 | 8.6 | NA | noncoding (28/34 nt) | other | REP328b |
| ? | NC_000913 | 4374576 = | NA (NA) | noncoding (22/29 nt) | other | REPv329b | |||||
| * | ? | NC_000913 | = 871062 | 124 (1.260) | 4 (0.040) | 4/416 | 9.1 | 3.3% | coding (96/921 nt) | gsiC | glutathione ABC transporter membrane subunit GsiC |
| ? | NC_000913 | = 871080 | 114 (1.200) | coding (114/921 nt) | gsiC | glutathione ABC transporter membrane subunit GsiC | |||||
| * | ? | NC_000913 | 1411899 = | 90 (0.920) | 3 (0.030) | 3/378 | 9.2 | 3.4% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 89 (1.030) | pseudogene (51/51 nt) | ttcC | putative tRNA 2‑thiocytidine (s(2)C32) synthase | |||||
| * | ? | NC_000913 | 4558302 = | 63 (0.640) | 3 (0.030) | 3/406 | 9.6 | 4.8% | intergenic (‑13/+52) | hypT/iadA | DNA‑binding transcriptional dual regulator HypT/isoaspartyl dipeptidase |
| ? | NC_000913 | 4558349 = | 59 (0.640) | intergenic (‑60/+5) | hypT/iadA | DNA‑binding transcriptional dual regulator HypT/isoaspartyl dipeptidase | |||||
| * | ? | NC_000913 | = 1082873 | 114 (1.160) | 3 (0.030) | 3/410 | 9.6 | 3.1% | coding (631/1128 nt) | efeO | ferrous iron transport system protein EfeO |
| ? | NC_000913 | = 1083021 | 80 (0.850) | coding (779/1128 nt) | efeO | ferrous iron transport system protein EfeO | |||||
| * | ? | NC_000913 | = 4629102 | 96 (0.980) | 3 (0.030) | 3/414 | 9.7 | 3.3% | coding (1421/1668 nt) | ettA | energy‑dependent translational throttle protein EttA |
| ? | NC_000913 | 4629949 = | 83 (0.880) | coding (574/1668 nt) | ettA | energy‑dependent translational throttle protein EttA | |||||
| * | ? | NC_000913 | 969360 = | 69 (0.700) | 3 (0.030) | 3/412 | 9.7 | 4.3% | intergenic (+8/‑29) | lpxK/ycaQ | tetraacyldisaccharide 4'‑kinase/winged helix DNA‑binding domain‑containing protein YcaQ |
| ? | NC_000913 | 969402 = | 66 (0.700) | coding (14/1233 nt) | ycaQ | winged helix DNA‑binding domain‑containing protein YcaQ | |||||
| * | ? | NC_000913 | 349165 = | 92 (0.940) | 3 (0.030) | 3/412 | 9.7 | 3.1% | coding (484/891 nt) | prpB | 2‑methylisocitrate lyase |
| ? | NC_000913 | 349276 = | 98 (1.040) | coding (595/891 nt) | prpB | 2‑methylisocitrate lyase | |||||
| * | ? | NC_000913 | = 75395 | 72 (0.730) | 3 (0.030) | 3/412 | 9.7 | 3.8% | coding (86/984 nt) | thiB | thiamine ABC transporter periplasmic binding protein |
| ? | NC_000913 | = 75530 | 81 (0.860) | intergenic (‑50/+114) | thiB/sgrR | thiamine ABC transporter periplasmic binding protein/DNA‑binding transcriptional dual regulator SgrR | |||||