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 445 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 681,493 | 0 | C | A | 48.4% | 6.9 / 15.6 | 32 | S211S (TCG→TCT) | gltJ | glutamate/aspartate ABC transporter permease GltJ |
| * | NZ_CP009273 | 3,416,649 | 0 | A | C | 45.9% | 52.6 / 23.0 | 61 | intergenic (+96/+135) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| * | NZ_CP009273 | 1,217,689 | 0 | G | A | 43.8% | 104.5 / 33.9 | 80 | pseudogene (2228/2243 nt) | BW25113_RS25990 | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | NZ_CP009273 | 2,089,571 | 0 | A | G | 43.3% | 101.3 / 24.2 | 68 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 1,257,298 | 0 | T | G | 42.1% | 123.5 / 17.7 | 77 | T12P (ACC→CCC) | prs | ribose‑phosphate diphosphokinase |
| * | NZ_CP009273 | 2,145,167 | 0 | G | T | 41.3% | 30.6 / 14.3 | 46 | intergenic (+40/+25) | yegJ/pphC | DUF2314 domain‑containing protein/protein‑serine/threonine phosphatase PphC |
| * | NZ_CP009273 | 3,806,632 | 0 | C | T | 40.7% | 60.1 / 22.7 | 55 | S181L (TCG→TTG) | coaBC | bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase CoaBC |
| * | NZ_CP009273 | 1,219,477 | 0 | A | G | 40.5% | 114.1 / 31.9 | 79 | intergenic (+114/+258) | BW25113_RS06105/minE | autotransporter outer membrane beta‑barrel domain‑containing protein/cell division topological specificity factor MinE |
| * | NZ_CP009273 | 3,394,818 | 0 | T | C | 40.0% | 129.6 / 22.5 | 80 | D625G (GAT→GGT) | csrD | RNase E specificity factor CsrD |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 39.7% | 106.3 / 32.8 | 78 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,221,754 | 0 | T | C | 39.4% | 66.9 / 17.1 | 71 | pseudogene (484/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 2,319,929 | 0 | T | G | 38.2% | 110.5 / 20.8 | 68 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NZ_CP009273 | 3,416,653 | 0 | T | C | 37.7% | 84.1 / 18.5 | 62 | intergenic (+100/+131) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| * | NZ_CP009273 | 762,172 | 0 | G | T | 37.5% | 43.6 / 16.7 | 48 | A225S (GCG→TCG) | mngA | PTS 2‑O‑a‑mannosyl‑D‑glycerate transporter subunit IIABC |
| * | NZ_CP009273 | 1,568,308 | 0 | G | T | 37.4% | 175.8 / 32.2 | 91 | V380V (GTC→GTA) | pqqL | insulinase family protein |
| * | NZ_CP009273 | 4,551,032 | 0 | G | A | 37.4% | 137.5 / 28.5 | 91 | E96K (GAA→AAA) | kptA | RNA 2'‑phosphotransferase |
| * | NZ_CP009273 | 1,377,979 | 0 | G | A | 37.2% | 131.0 / 35.2 | 86 | F80F (TTC→TTT) | ycjW | LacI family DNA‑binding transcriptional regulator |
| * | NZ_CP009273 | 1,009,475 | 0 | A | G | 37.2% | 134.0 / 26.4 | 78 | E254G (GAA→GGA) | pqiB | intermembrane transport protein PqiB |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 36.8% | 186.4 / 35.0 | 95 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 4,058,940 | 0 | T | A | 36.8% | 115.4 / 33.7 | 76 | T63S (ACC→TCC) | yihO | MFS transporter |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 3416707 | 63 (0.640) | 11 (0.490) +191 bp |
6/112 | 3.2 | 43.3% | intergenic (+154/+77) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | 3416716 = | 64 (0.650) | intergenic (+163/+68) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 360104 = | 47 (0.470) | 62 (0.630) | 45/494 | 3.4 | 53.2% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 62 (0.630) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 360104 = | 49 (0.500) | 49 (0.510) +AATTCC |
35/482 | 5.0 | 40.4% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | 4161677 = | 99 (1.000) | noncoding (111/116 nt) | rrf | 5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | = 1203261 | 63 (0.640) | 16 (0.170) | 15/462 | 10.6 | 18.5% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 82 (0.890) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 57 (0.580) | 15 (0.160) | 15/462 | 10.6 | 18.1% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 82 (0.890) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 692197 | 79 (0.800) | 8 (0.120) | 8/338 | 10.7 | 11.5% | intergenic (‑1/+15) | BW25113_RS03450/BW25113_RS03455 | tRNA‑Met/tRNA‑Gln |
| ? | NZ_CP009273 | 692591 = | 69 (1.020) | intergenic (‑2/+378) | BW25113_RS03470/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP009273 | = 3541908 | 72 (0.730) | 16 (0.180) +23 bp |
13/448 | 11.1 | 19.1% | coding (1522/2085 nt) | malQ | 4‑alpha‑glucanotransferase |
| ? | NZ_CP009273 | 3541932 = | 77 (0.780) | coding (1498/2085 nt) | malQ | 4‑alpha‑glucanotransferase | |||||
| * | ? | NZ_CP009273 | = 360286 | 63 (0.640) | 18 (0.190) +AATTC |
14/484 | 11.5 | 21.9% | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | 3416618 = | 68 (0.690) | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 3416618 = | 68 (0.690) | 6 (0.100) +93 bp |
5/308 | 11.7 | 12.8% | intergenic (+65/+166) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA |
| ? | NZ_CP009273 | = 3416707 | 63 (0.640) | intergenic (+154/+77) | yhdZ/rrf | amino acid ABC transporter ATP‑binding protein/5S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | = 2940826 | 45 (0.450) | 4 (0.060) | 3/328 | 14.1 | 9.4% | intergenic (+4/‑30) | BW25113_RS14635/BW25113_RS14640 | tRNA‑Met/tRNA‑Met |
| ? | NZ_CP009273 | 2941047 = | 47 (0.720) | intergenic (+5/+69) | BW25113_RS14645/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase AmiC | |||||