mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,984 | 0 | T | G | 42.1% | 292.0 / inf | 247 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 41.9% | 238.5 / 312.7 | 247 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,970 | 0 | G | A | 35.1% | 302.2 / 211.1 | 211 | intergenic (‑180/+128) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,971 | 0 | C | A | 35.1% | 378.4 / 246.7 | 211 | intergenic (‑181/+127) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,048 | 0 | G | T | 32.5% | 476.5 / 251.6 | 252 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,017 | 0 | C | T | 28.3% | 423.6 / 169.4 | 247 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,978 | 0 | A | C | 27.1% | 460.7 / 203.7 | 249 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 176,978 | 0 | A | T | 21.9% | 261.7 / 70.2 | 119 | intergenic (+24/+23) | erpA/yadS | iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein |
| * | NC_000913 | 3,067,320 | 0 | A | T | 21.7% | 280.4 / 77.5 | 129 | intergenic (‑147/+20) | ygfI/yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| * | NC_000913 | 4,520,500 | 0 | A | . | 21.7% | 480.1 / 134.2 | 176 | intergenic (‑176/+171) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,067,323 | 0 | A | T | 21.3% | 286.7 / 72.8 | 128 | intergenic (‑150/+17) | ygfI/yggE | putative DNA‑binding transcriptional regulator/oxidative stress defense protein |
| * | NC_000913 | 4,520,504 | 1 | . | T | 21.1% | 485.4 / 170.2 | 177 | intergenic (‑180/+167) | yjhU/yjhF | putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter |
| * | NC_000913 | 3,183,345 | 1 | . | T | 21.1% | 417.3 / 142.7 | 152 | intergenic (+22/+468) | zupT/ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| * | NC_000913 | 176,977 | 0 | A | G | 21.0% | 240.3 / 61.4 | 119 | intergenic (+23/+24) | erpA/yadS | iron‑sulfur cluster insertion protein/UPF0126 family inner membrane protein |
| * | NC_000913 | 850,993 | 0 | T | C | 20.8% | 281.0 / 76.6 | 144 | intergenic (+28/+21) | ompX/opgE | outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase |
| * | NC_000913 | 850,995 | 0 | T | G | 20.8% | 319.1 / 95.1 | 144 | intergenic (+30/+19) | ompX/opgE | outer membrane protein X/OPG biosynthetic transmembrane phosphoethanolamine transferase |
| * | NC_000913 | 3,183,350 | 0 | A | . | 20.6% | 431.9 / 111.7 | 155 | intergenic (+27/+463) | zupT/ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| * | NC_000913 | 1,864,763 | 0 | A | T | 20.6% | 275.0 / 70.6 | 126 | intergenic (+29/+19) | yeaD/yeaE | D‑hexose‑6‑phosphate epimerase‑like protein/aldo‑keto reductase, methylglyoxal to acetol, NADPH‑dependent |
| * | NC_000913 | 1,650,148 | 0 | T | C | 20.6% | 260.6 / 68.3 | 131 | pseudogene (71/765 nt) | ydfE | Qin prophage; pseudogene;Phage or Prophage Related |
| * | NC_000913 | 1,650,147 | 0 | G | A | 20.5% | 273.3 / 61.6 | 128 | pseudogene (70/765 nt) | ydfE | Qin prophage; pseudogene;Phage or Prophage Related |
| Marginal new junction evidence (lowest skew 10 of 1500 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 274419 | NA (NA) | 114 (0.890) | 30/188 | 7.9 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 79 (0.620) | 27/186 | 8.7 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 3944978 | NA (NA) | 78 (0.620) | 26/186 | 9.0 | 81.4% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 19 (0.140) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 57 (0.470) | 25/180 | 9.0 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 227052 | 41 (0.300) | 78 (0.620) | 24/186 | 9.8 | 67.0% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 3943624 | NA (NA) | 54 (0.430) | 23/184 | 10.0 | 77.4% | intergenic (+114/‑80) | gltU/rrlC | tRNA‑Glu/23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4037457 | 17 (0.130) | intergenic (+122/‑62) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 4037450 | NA (NA) | 56 (0.450) | 22/184 | 10.4 | 25.3% | intergenic (+115/‑69) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4168568 | 178 (1.320) | intergenic (+121/‑73) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | = 4171625 | 1 (0.010) | 90 (0.710) | 22/186 | 10.5 | 99.0% | intergenic (+81/‑12) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213004 | NA (NA) | intergenic (+58/‑36) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | = 4040481 | NA (NA) | 91 (0.720) | 22/186 | 10.5 | 100% | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4040505 | 0 (0.000) | intergenic (+82/‑12) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 1096988 = | NA (NA) | 37 (0.280) | 23/192 | 10.5 | NA | intergenic (+159/+577) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913 | 1097010 = | NA (NA) | intergenic (+181/+555) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||