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 | 60.8% | 211.2 / inf | 321 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 60.6% | 230.9 / inf | 322 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 60.4% | 218.0 / inf | 322 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,770 | 0 | G | C | 59.5% | 232.3 / inf | 368 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 59.5% | 221.8 / inf | 368 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 59.3% | 849.9 / inf | 368 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 43.9% | 259.3 / inf | 237 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 43.5% | 266.1 / inf | 233 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 40.5% | 152.1 / inf | 368 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 39.9% | 746.9 / inf | 316 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 39.4% | 175.3 / inf | 322 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,296,268 | 0 | T | C | 22.6% | 55.0 / 16.2 | 31 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,168,472 | 0 | G | A | 21.3% | 342.7 / 95.9 | 155 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 20.7% | 373.6 / 100.6 | 150 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 20.7% | 344.7 / 89.9 | 150 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 12 (0.150) | 8/416 | 5.9 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 4542690 | 84 (0.980) | 7 (0.090) | 7/416 | 6.2 | 8.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 65 (0.790) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2713829 | 108 (1.260) | 8 (0.100) | 7/412 | 6.2 | 8.0% | coding (934/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB |
| ? | NC_000913 | = 2713908 | 81 (1.000) | coding (1013/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB | |||||
| * | ? | NC_000913 | 2268434 = | 65 (0.760) | 4 (0.050) | 4/418 | 7.6 | 6.1% | coding (606/987 nt) | yeiR | zinc‑binding GTPase YeiR |
| ? | NC_000913 | 2268515 = | 60 (0.730) | coding (687/987 nt) | yeiR | zinc‑binding GTPase YeiR | |||||
| * | ? | NC_000913 | = 4373269 | NA (NA) | 4 (0.050) | 4/422 | 7.7 | NA | noncoding (28/34 nt) | other | REP328b |
| ? | NC_000913 | 4374576 = | NA (NA) | noncoding (22/29 nt) | other | REPv329b | |||||
| * | ? | NC_000913 | 1426168 = | 110 (1.290) | 3 (0.040) | 3/414 | 8.1 | 2.8% | intergenic (+188/‑286) | ydaY/ynaA | Rac prophage; putative uncharacterized protein YdaY/Rac prophage; putative prophage tail length tape measure domain‑containing protein YnaA |
| ? | NC_000913 | 1426189 = | 106 (1.300) | intergenic (+209/‑265) | ydaY/ynaA | Rac prophage; putative uncharacterized protein YdaY/Rac prophage; putative prophage tail length tape measure domain‑containing protein YnaA | |||||
| * | ? | NC_000913 | = 1082873 | 103 (1.200) | 4 (0.050) | 3/414 | 8.1 | 4.9% | coding (631/1128 nt) | efeO | ferrous iron transport system protein EfeO |
| ? | NC_000913 | = 1083021 | 57 (0.700) | coding (779/1128 nt) | efeO | ferrous iron transport system protein EfeO | |||||
| * | ? | NC_000913 | = 3339621 | 157 (1.840) | 3 (0.040) | 3/416 | 8.2 | 2.0% | coding (445/810 nt) | mlaF | intermembrane phospholipid transport system, ATP binding subunit MlaF |
| ? | NC_000913 | = 3339707 | 137 (1.670) | coding (359/810 nt) | mlaF | intermembrane phospholipid transport system, ATP binding subunit MlaF | |||||
| * | ? | NC_000913 | 4402137 = | 66 (0.770) | 3 (0.040) | 3/426 | 8.3 | 5.0% | coding (100/1260 nt) | hflK | regulator of FtsH protease |
| ? | NC_000913 | 4402256 = | 50 (0.600) | coding (219/1260 nt) | hflK | regulator of FtsH protease | |||||
| * | ? | NC_000913 | 2068944 = | NA (NA) | 5 (0.060) | 3/428 | 8.3 | NA | noncoding (1328/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 2070275 | NA (NA) | intergenic (‑95/‑2) | insC‑3/yoeA | CP4‑44 prophage; IS2 insertion element repressor InsA/CP4‑44 prophage; TonB‑dependent receptor plug domain‑containing protein YoeA | |||||