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 (highest frequency 20 of 272 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 41.8% | 96.5 / 40.7 | 79 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 39.2% | 99.5 / 43.3 | 79 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 3,855,998 | 0 | T | C | 37.2% | 92.7 / 11.1 | 52 | pseudogene (966/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 3,856,024 | 0 | C | G | 36.2% | 38.0 / 17.8 | 48 | pseudogene (940/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 2,476,733 | 0 | G | A | 35.7% | 158.6 / 37.4 | 98 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NZ_CP009273 | 5,159 | 0 | G | A | 34.9% | 127.3 / 37.6 | 83 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| * | NZ_CP009273 | 2,089,571 | 0 | A | G | 34.2% | 143.0 / 12.7 | 73 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 748,581 | 0 | T | A | 34.2% | 145.4 / 28.2 | 76 | intergenic (‑330/+60) | ybgD/gltA | fimbrial protein/citrate synthase |
| * | NZ_CP009273 | 3,199,794 | 0 | C | T | 34.2% | 108.6 / 34.4 | 83 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 2,428,361 | 0 | T | G | 34.1% | 175.8 / 33.8 | 91 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase TruA |
| * | NZ_CP009273 | 4,245,997 | 0 | G | C | 33.3% | 128.2 / 20.2 | 63 | P133R (CCG→CGG) | plsB | glycerol‑3‑phosphate 1‑O‑acyltransferase PlsB |
| * | NZ_CP009273 | 4,331,852 | 0 | A | C | 33.3% | 175.9 / 11.3 | 85 | D42A (GAC→GCC) | melA | alpha‑galactosidase |
| * | NZ_CP009273 | 4,419,801 | 0 | T | G | 33.0% | 195.9 / 15.3 | 94 | L41V (TTG→GTG) | cycA | D‑serine/D‑alanine/glycine transporter |
| * | NZ_CP009273 | 3,171,107 | 0 | C | A | 32.9% | 132.9 / 38.1 | 85 | E55* (GAG→TAG) | nudF | ADP‑ribose diphosphatase |
| * | NZ_CP009273 | 2,319,929 | 0 | T | G | 32.8% | 141.7 / 17.6 | 67 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NZ_CP009273 | 1,555,035 | 0 | T | C | 32.6% | 82.6 / 10.8 | 46 | E51G (GAA→GGA) | ddpB | ABC transporter permease |
| * | NZ_CP009273 | 1,257,298 | 0 | T | G | 32.4% | 148.3 / 11.4 | 69 | T12P (ACC→CCC) | prs | ribose‑phosphate diphosphokinase |
| * | NZ_CP009273 | 3,387,038 | 0 | A | T | 32.0% | 145.9 / 28.3 | 79 | S860R (AGT→AGA) | yhdP | AsmA2 domain‑containing protein YhdP |
| * | NZ_CP009273 | 4,020,593 | 0 | T | A | 31.9% | 153.1 / 27.0 | 95 | intergenic (+5/+376) | fre/fadA | NAD(P)H‑flavin reductase/acetyl‑CoA C‑acyltransferase FadA |
| * | NZ_CP009273 | 5,162 | 0 | T | A | 31.7% | 171.2 / 23.6 | 83 | intergenic (+142/‑72) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 3416707 | 57 (0.570) | 5 (0.220) +191 bp |
5/114 | 3.7 | 27.9% | intergenic (+154/+77) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | 3416716 = | 57 (0.570) | intergenic (+163/+68) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 360104 = | 45 (0.450) | 45 (0.450) | 42/496 | 3.8 | 47.9% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 53 (0.530) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 360104 = | 48 (0.480) | 36 (0.370) +AATTCC |
33/484 | 5.3 | 34.8% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | 4161677 = | 90 (0.900) | noncoding (111/116 nt) | rrf | 5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 3416618 = | 61 (0.610) | 8 (0.210) +152 bp |
7/192 | 6.0 | 26.6% | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | = 3416648 | 54 (0.540) | intergenic (+95/+136) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 3416618 = | 61 (0.610) | 5 (0.080) +93 bp |
4/310 | 12.4 | 12.0% | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | = 3416707 | 57 (0.570) | intergenic (+154/+77) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | = 360286 | 55 (0.550) | 12 (0.120) +AATTC |
11/486 | 12.8 | 17.4% | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | 3416618 = | 61 (0.610) | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 360104 = | 48 (0.480) | 10 (0.100) +AATTCC |
9/484 | 13.9 | 12.7% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | 4033989 = | 93 (0.930) | noncoding (111/116 nt) | rrf | 5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | = 692197 | 50 (0.500) | 3 (0.040) | 3/340 | 14.3 | 6.0% | intergenic (‑1/+15) | BW25113_RS03450/BW25113_RS03455 | tRNA‑Met/tRNA‑Gln |
| ? | NZ_CP009273 | 692591 = | 59 (0.860) | intergenic (‑2/+378) | BW25113_RS03470/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP009273 | 3416618 = | 61 (0.610) | 5 (0.050) +GAATTAATTCC |
4/474 | 17.1 | 6.5% | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | 4161677 = | 90 (0.900) | noncoding (111/116 nt) | rrf | 5S ribosomal RNA | |||||