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 81 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,537,327 | 0 | G | T | 56.5% | 0.5 / 19.1 | 26 | intergenic (+39/‑58) | greB/yhgF | transcription elongation factor GreB/putative RNA‑binding protein YhgF |
| * | NC_000913 | 2,177,234 | 0 | C | A | 53.6% | 1.6 / 16.3 | 38 | intergenic (‑30/+278) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,245 | 0 | G | T | 53.5% | ‑5.3 / 24.5 | 46 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 3,407,971 | 0 | T | G | 52.0% | 7.9 / 26.6 | 25 | L122R (CTT→CGT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 1,879,848 | 0 | C | G | 51.2% | 30.0 / 62.0 | 41 | G34A (GGA→GCA) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 4,378,973 | 0 | G | C | 50.0% | ‑6.1 / 14.5 | 24 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 1,879,846 | 0 | T | G | 48.8% | 17.1 / 22.5 | 41 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 2,177,221 | 0 | T | G | 47.4% | 15.8 / 18.4 | 38 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,255 | 0 | G | T | 46.9% | 26.5 / 23.3 | 49 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,177,228 | 0 | C | T | 45.5% | ‑5.1 / 20.7 | 37 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 707,976 | 0 | T | G | 45.2% | 21.5 / 18.8 | 42 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,470,427 | 0 | C | A | 44.7% | 42.7 / 11.8 | 44 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,283,226 | 0 | G | C | 43.8% | 31.2 / 11.5 | 32 | intergenic (‑151/+27) | yjcF/actP | pentapeptide repeat‑containing protein YjcF/acetate/glycolate:cation symporter |
| * | NC_000913 | 1,708,326 | 0 | G | T | 42.2% | 64.4 / 18.3 | 64 | E470* (GAA→TAA) | rsxC | SoxR [2Fe‑2S] reducing system protein RsxC |
| * | NC_000913 | 3,455,680 | 0 | G | T | 41.5% | 57.8 / 21.2 | 53 | V35L (GTG→TTG) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 3,004,946 | 0 | G | T | 39.6% | 54.4 / 18.6 | 48 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 411,596 | 0 | C | A | 39.4% | 62.1 / 22.2 | 66 | A296S (GCT→TCT) | araJ | putative transport protein AraJ |
| * | NC_000913 | 1,425,560 | 0 | A | T | 39.2% | 42.6 / 23.2 | 52 | M62L (ATG→TTG) | ynaK | Rac prophage; ParB‑like nuclease domain‑containing protein YnaK |
| * | NC_000913 | 1,425,558 | 0 | T | G | 38.5% | 52.4 / 15.5 | 52 | V61G (GTT→GGT) | ynaK | Rac prophage; ParB‑like nuclease domain‑containing protein YnaK |
| * | NC_000913 | 1,879,895 | 0 | A | T | 35.7% | 64.5 / 17.9 | 42 | N18K (AAT→AAA) | yeaR | DUF1971 domain‑containing protein YeaR |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 4 (0.060) | 4/254 | 6.1 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499512 | NA (NA) | intergenic (+12/+81) | insD‑6/yjgX | KpLE2 phage‑like element; IS2 insertion element protein InsB/KpLE2 phage‑like element; putative phosphoethanolamine transferase YjgX, N‑terminal fragment | |||||
| * | ? | NC_000913 | 4498180 = | NA (NA) | 12 (0.170) | 4/254 | 6.1 | NA | intergenic (+240/‑92) | intB/insC‑6 | KpLE2 phage‑like element; putative integrase/KpLE2 phage‑like element; IS2 insertion element repressor InsA |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1467909 = | NA (NA) | 6 (0.090) | 4/254 | 6.1 | NA | pseudogene (2518/2518 nt) | ydbA | putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | = 1469240 | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 381258 = | NA (NA) | 9 (0.130) | 4/252 | 6.1 | NA | pseudogene (3/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4375307 = | 58 (0.820) | 3 (0.040) | 3/252 | 6.7 | 5.2% | coding (351/1029 nt) | epmB | lysine 2,3‑aminomutase |
| ? | NC_000913 | = 4375415 | 52 (0.740) | coding (243/1029 nt) | epmB | lysine 2,3‑aminomutase | |||||