mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 60.1% | 217.3 / inf | 323 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 59.9% | 221.2 / inf | 324 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 59.4% | 192.8 / inf | 324 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 8,770 | 0 | G | C | 54.6% | 74.8 / inf | 368 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 54.6% | 63.9 / inf | 368 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,772 | 0 | A | C | 54.5% | inf / inf | 368 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,767 | 1 | . | C | 45.1% | inf / inf | 368 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 40.2% | 747.3 / inf | 319 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 39.8% | 166.4 / inf | 324 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,221 | 0 | T | C | 39.8% | 325.3 / inf | 254 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 38.2% | 352.6 / inf | 251 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,472 | 0 | G | A | 31.6% | 248.5 / 165.0 | 174 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 31.0% | 270.5 / 186.5 | 171 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 31.0% | 252.6 / 163.6 | 172 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 34 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381292 = | NA (NA) | 14 (0.140) | 13/412 | 5.7 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2286126 = | 125 (1.190) | 7 (0.070) | 7/404 | 7.7 | 5.8% | coding (1751/1761 nt) | yejM | putative cardiolipin transport protein |
| ? | NC_000913 | 2286159 = | 111 (1.120) | intergenic (+23/‑52) | yejM/proL | putative cardiolipin transport protein/tRNA‑Pro | |||||
| * | ? | NC_000913 | = 4542690 | 96 (0.910) | 5 (0.050) | 5/412 | 8.8 | 4.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 104 (1.030) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3220520 = | 85 (0.810) | 5 (0.050) | 5/412 | 8.8 | 5.1% | coding (1027/1380 nt) | patA | putrescine aminotransferase |
| ? | NC_000913 | 3220730 = | 106 (1.050) | coding (1237/1380 nt) | patA | putrescine aminotransferase | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 5 (0.050) | 5/416 | 8.8 | NA | noncoding (2258/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | 228041 = | NA (NA) | noncoding (2283/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 1987441 | 84 (0.800) | 4 (0.040) | 4/410 | 9.3 | 4.6% | intergenic (+13/+66) | ftnB/yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ |
| ? | NC_000913 | = 1987450 | 84 (0.840) | intergenic (+22/+57) | ftnB/yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ | |||||
| * | ? | NC_000913 | 509894 = | 95 (0.900) | 4 (0.040) | 4/414 | 9.4 | 4.2% | coding (1486/2505 nt) | copA | Cu(+) exporting P‑type ATPase |
| ? | NC_000913 | 509924 = | 93 (0.920) | coding (1456/2505 nt) | copA | Cu(+) exporting P‑type ATPase | |||||
| * | ? | NC_000913 | = 422749 | 121 (1.150) | 5 (0.050) | 4/414 | 9.4 | 4.0% | coding (232/1815 nt) | malZ | maltodextrin glucosidase |
| ? | NC_000913 | = 422816 | 121 (1.200) | coding (299/1815 nt) | malZ | maltodextrin glucosidase | |||||
| * | ? | NC_000913 | 375248 = | NA (NA) | 3 (0.030) | 3/392 | 9.7 | NA | noncoding (15/34 nt) | other | REP31g |
| ? | NC_000913 | 377507 = | NA (NA) | noncoding (16/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 3959502 = | 108 (1.030) | 3 (0.030) | 3/404 | 9.9 | 2.8% | intergenic (+57/+30) | ilvC/ppiC | ketol‑acid reductoisomerase (NADP(+))/peptidyl‑prolyl cis‑trans isomerase C |
| ? | NC_000913 | 3959529 = | 106 (1.070) | intergenic (+84/+3) | ilvC/ppiC | ketol‑acid reductoisomerase (NADP(+))/peptidyl‑prolyl cis‑trans isomerase C | |||||