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% | 187.3 / inf | 268 | P88R (CCG→CGG) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,940 | 0 | G | C | 60.8% | 195.6 / inf | 268 | P88P (CCG→CCC) ‡ | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 0 | C | G | 60.8% | 195.8 / inf | 268 | P89A (CCT→GCT) | upf31.7 | hypothetical protein |
| * | BN000925 | 8,772 | 0 | A | C | 58.7% | 787.0 / inf | 357 | coding (1371/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 8,770 | 0 | G | C | 58.5% | 192.2 / inf | 357 | A457P (GCA→CCA) ‡ | tnpA | Tn1 transposase |
| * | BN000925 | 8,771 | 0 | C | G | 58.5% | 186.7 / inf | 357 | A457G (GCA→GGA) ‡ | tnpA | Tn1 transposase |
| * | NC_000913 | 4,168,221 | 0 | T | C | 49.4% | 165.0 / inf | 249 | intergenic (+21/‑151) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | NC_000913 | 4,168,215 | 0 | A | T | 48.2% | 177.0 / inf | 247 | intergenic (+15/‑157) | rrsB/gltT | 16S ribosomal RNA/tRNA‑Glu |
| * | BN000925 | 8,767 | 1 | . | C | 41.3% | 117.1 / inf | 357 | coding (1366/3006 nt) | tnpA | Tn1 transposase |
| * | BN000925 | 31,938 | 0 | C | . | 39.5% | 614.4 / inf | 266 | coding (262/420 nt) | upf31.7 | hypothetical protein |
| * | BN000925 | 31,941 | 1 | . | G | 39.2% | 155.3 / inf | 268 | coding (265/420 nt) | upf31.7 | hypothetical protein |
| * | NC_000913 | 4,168,472 | 0 | G | A | 27.7% | 323.5 / 168.4 | 195 | intergenic (+25/‑169) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,475 | 0 | G | T | 26.7% | 379.9 / 170.9 | 187 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| * | NC_000913 | 4,168,476 | 0 | A | G | 26.7% | 337.6 / 148.3 | 187 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 114 (1.020) | 30 (0.290) | 25/394 | 3.6 | 23.7% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 88 (0.850) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 115 (1.030) | 26 (0.250) | 21/394 | 4.3 | 21.6% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 82 (0.790) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 15 (0.140) | 10/408 | 7.6 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1209618 | 98 (0.880) | 3 (0.030) | 3/396 | 11.0 | 2.9% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 110 (1.060) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | = 3858205 | 106 (0.950) | 3 (0.030) | 3/400 | 11.1 | 3.2% | coding (200/1494 nt) | yidJ | putative sulfatase/phosphatase |
| ? | NC_000913 | = 3858228 | 83 (0.790) | coding (177/1494 nt) | yidJ | putative sulfatase/phosphatase | |||||
| * | ? | NC_000913 | = 3051064 | 91 (0.810) | 3 (0.030) | 3/400 | 11.1 | 3.3% | intergenic (+23/+51) | yqfI/ubiI | protein YqfI/2‑octaprenylphenol hydroxylase |
| ? | NC_000913 | = 3051221 | 90 (0.860) | coding (1097/1203 nt) | ubiI | 2‑octaprenylphenol hydroxylase | |||||
| * | ? | NC_000913 | = 1987441 | 96 (0.860) | 4 (0.040) | 3/406 | 11.1 | 4.0% | intergenic (+13/+66) | ftnB/yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ |
| ? | NC_000913 | = 1987450 | 100 (0.940) | intergenic (+22/+57) | ftnB/yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ | |||||
| * | ? | NC_000913 | = 608010 | 115 (1.030) | 3 (0.030) | 3/402 | 11.1 | 2.6% | noncoding (4/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609360 = | 115 (1.090) | intergenic (+183/+99) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 4370205 = | 104 (0.930) | 3 (0.030) | 3/408 | 11.2 | 2.8% | coding (208/1257 nt) | yjeH | L‑methionine/branched chain amino acid exporter |
| ? | NC_000913 | 4370316 = | 105 (0.980) | coding (97/1257 nt) | yjeH | L‑methionine/branched chain amino acid exporter | |||||
| * | ? | BN000925 | 27691 = | 346 (1.070) | 6 (0.020) | 5/408 | 21.8 | 1.7% | coding (26/1587 nt) | trbL | TrbL protein |
| ? | BN000925 | 27799 = | 343 (1.110) | coding (134/1587 nt) | trbL | TrbL protein | |||||