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 | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 29.4% | 122.5 / 37.7 | 119 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 3,997,395 | 0 | G | C | 27.5% | 177.5 / 10.8 | 72 | F48L (TTC→TTG) | rarD | putative chloramphenical resistance permease |
| * | CP009273 | 4,234,523 | 0 | C | G | 25.9% | 242.0 / 21.4 | 113 | E161Q (GAA→CAA) | malF | maltose transporter subunit |
| * | CP009273 | 838,675 | 0 | C | A | 25.3% | 177.9 / 18.9 | 95 | N296K (AAC→AAA) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 2,178,908 | 0 | T | G | 24.7% | 166.7 / 22.0 | 97 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 838,672 | 0 | G | T | 24.5% | 158.5 / 20.3 | 102 | M295I (ATG→ATT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 4,234,527 | 0 | C | G | 23.2% | 233.7 / 11.8 | 113 | L159L (CTG→CTC) | malF | maltose transporter subunit |
| * | CP009273 | 910,669 | 0 | A | T | 22.7% | 141.3 / 15.1 | 73 | intergenic (‑356/+139) | ybjE/aqpZ | putative transporter/aquaporin Z |
| * | CP009273 | 104,041 | 0 | G | T | 21.6% | 102.7 / 10.9 | 51 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 838,658 | 0 | G | T | 20.4% | 198.1 / 14.5 | 108 | A291S (GCC→TCC) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 1203261 | 95 (0.840) | 14 (0.140) | 11/236 | 4.7 | 15.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 71 (0.710) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 4532507 | 54 (0.470) | 12 (0.110) | 8/250 | 6.1 | 15.2% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 83 (0.780) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 57 (0.500) | 8 (0.080) | 6/250 | 7.0 | 10.5% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 83 (0.780) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 1763774 = | 118 (1.040) | 4 (0.040) | 3/248 | 8.6 | 3.4% | coding (444/1113 nt) | ydiK | UPF0118 family inner membrane protein |
| ? | CP009273 | = 1763770 | 116 (1.100) | coding (440/1113 nt) | ydiK | UPF0118 family inner membrane protein | |||||
| * | ? | CP009273 | 1292815 = | 104 (0.910) | 3 (0.030) | 3/246 | 8.6 | 3.1% | coding (763/2676 nt) | adhE | fused acetaldehyde‑CoA dehydrogenase/iron‑dependent alcohol dehydrogenase/pyruvate‑formate lyase deactivase |
| ? | CP009273 | = 1292811 | 90 (0.860) | coding (767/2676 nt) | adhE | fused acetaldehyde‑CoA dehydrogenase/iron‑dependent alcohol dehydrogenase/pyruvate‑formate lyase deactivase | |||||
| * | ? | CP009273 | = 1965159 | 108 (0.950) | 3 (0.030) | 3/260 | 8.9 | 3.2% | coding (83/1602 nt) | tap | methyl‑accepting protein IV |
| ? | CP009273 | 2557105 = | 78 (0.710) | coding (155/378 nt) | yffQ | CPZ‑55 prophage; uncharacterized protein | |||||
| * | ? | CP009273 | = 2212267 | 126 (1.110) | 3 (0.030) | 3/264 | 9.0 | 2.5% | coding (694/918 nt) | osmF | putative ABC superfamily transporter periplasmic‑binding protein |
| ? | CP009273 | = 2824898 | 110 (0.980) | coding (751/1515 nt) | norR | anaerobic nitric oxide reductase DNA‑binding transcriptional activator | |||||
| * | ? | CP009273 | 2119054 = | 96 (0.840) | 3 (0.030) | 3/264 | 9.0 | 2.6% | coding (174/1224 nt) | wcaI | putative glycosyl transferase |
| ? | CP009273 | 3683254 = | 127 (1.130) | coding (368/1107 nt) | bcsZ | endo‑1,4‑D‑glucanase | |||||
| * | ? | CP009273 | = 2036652 | 91 (0.800) | 5 (0.040) | 3/266 | 9.0 | 5.3% | intergenic (+273/+297) | yodB/serU | cytochrome b561 homolog/tRNA‑Ser |
| ? | CP009273 | = 2036815 | 87 (0.770) | intergenic (+436/+134) | yodB/serU | cytochrome b561 homolog/tRNA‑Ser | |||||
| * | ? | CP009273 | = 1620975 | 100 (0.880) | 3 (0.030) | 3/264 | 9.0 | 2.5% | coding (663/2046 nt) | dcp | dipeptidyl carboxypeptidase II |
| ? | CP009273 | = 4352920 | 134 (1.200) | coding (206/576 nt) | yjdC | putative transcriptional regulator | |||||