mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 255 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,848,300 | 0 | C | T | 79.7% | 116.8 / 28.5 | 59 | G126E (GGG→GAG) ‡ | ydjA | putative oxidoreductase YdjA |
| * | NC_000913 | 1,147,792 | 0 | T | A | 79.6% | 125.7 / 25.4 | 55 | S58T (TCG→ACG) | plsX | putative phosphate acyltransferase |
| * | NC_000913 | 309,985 | 0 | T | A | 79.5% | 104.5 / 18.8 | 44 | G14G (GGA→GGT) | ecpB | putative fimbrial chaperone EcpB |
| * | NC_000913 | 2,546,804 | 0 | T | A | 79.5% | 93.7 / 18.5 | 45 | D44E (GAT→GAA) | murP | N‑acetylmuramic acid‑specific PTS enzyme IICB component/anhydro‑N‑acetylmuramic acid transporter |
| * | NC_000913 | 3,729,440 | 0 | C | T | 79.5% | 93.5 / 19.0 | 45 | noncoding (106/160 nt) | xylZ | small RNA XylZ |
| * | NC_000913 | 3,411,689 | 0 | G | T | 79.4% | 58.0 / 11.6 | 35 | E13* (GAA→TAA) | yhdJ | DNA adenine methyltransferase |
| * | NC_000913 | 395,169 | 0 | C | T | 79.3% | 60.5 / 10.0 | 29 | E373E (GAG→GAA) | ampH | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| * | NC_000913 | 789,580 | 0 | C | A | 79.3% | 123.8 / 30.7 | 58 | E134* (GAA→TAA) | galK | galactokinase |
| * | NC_000913 | 1,848,301 | 0 | C | T | 79.3% | 116.8 / 28.8 | 59 | G126R (GGG→AGG) ‡ | ydjA | putative oxidoreductase YdjA |
| * | NC_000913 | 780,624 | 0 | C | T | 79.2% | 95.7 / 24.3 | 53 | noncoding (71/76 nt) | lysT | tRNA‑Lys |
| * | NC_000913 | 2,570,269 | 0 | G | A | 79.1% | 173.1 / 41.6 | 88 | P23P (CCC→CCT) | eutJ | putative ethanolamine utilization chaperonin EutJ |
| * | NC_000913 | 2,002,825 | 0 | C | T | 78.8% | 62.9 / 17.0 | 33 | G261E (GGA→GAA) | fliC | flagellar filament structural protein |
| * | NC_000913 | 2,577,937 | 0 | T | C | 78.7% | 105.9 / 20.1 | 47 | E147E (GAA→GAG) | maeB | malate dehydrogenase (oxaloacetate‑decarboxylating) (NADP(+)) |
| * | NC_000913 | 1,038,477 | 0 | G | A | 78.6% | 90.5 / 19.1 | 43 | A246A (GCG→GCA) | appC | cytochrome bd‑II subunit 1 |
| * | NC_000913 | 1,522,583 | 0 | C | T | 78.6% | 108.1 / 31.6 | 56 | Q161Q (CAG→CAA) | yncD | putative TonB‑dependent outer membrane receptor |
| * | NC_000913 | 3,645 | 0 | G | A | 78.4% | 73.1 / 17.5 | 37 | W282* (TGG→TAG) | thrB | homoserine kinase |
| * | NC_000913 | 2,041,278 | 0 | G | A | 78.1% | 57.2 / 17.0 | 32 | intergenic (+160/‑97) | msrQ/zinT | membrane‑bound flavocytochrome MsrQ/metal‑binding protein ZinT |
| * | NC_000913 | 708,774 | 0 | G | A | 78.0% | 80.4 / 19.6 | 41 | A147A (GCG→GCA) | chiP | chitooligosaccharide outer membrane channel |
| * | NC_000913 | 1,541,037 | 0 | A | G | 78.0% | 82.1 / 21.0 | 41 | I518I (ATT→ATC) | narZ | nitrate reductase Z subunit alpha |
| * | NC_000913 | 2,926,772 | 0 | C | A | 78.0% | 122.9 / 28.4 | 59 | G155G (GGC→GGA) | ppnN | nucleotide 5'‑monophosphate nucleosidase |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4163082 = | 49 (1.030) | 6 (0.130) | 6/482 | 3.0 | 10.9% | coding (189/1101 nt) | trmA | tRNA m(5)U54 methyltransferase |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 3088324 | 33 (0.690) | 7 (0.150) | 6/484 | 3.0 | 17.5% | coding (41/1395 nt) | galP | galactose:H(+) symporter |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 6 (0.130) | 6/484 | 3.0 | 14.6% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2176330 | 35 (0.730) | intergenic (‑9/+20) | gatZ/gatY | putative tagatose‑1,6‑bisphosphate aldolase 2 chaperone/tagatose‑1,6‑bisphosphate aldolase 2 | |||||
| * | ? | NC_000913 | = 1743499 | 21 (0.440) | 6 (0.130) | 6/484 | 3.0 | 22.2% | coding (43/1374 nt) | mdtK | multidrug efflux pump MdtK |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1034134 = | 49 (1.030) | 6 (0.130) | 6/480 | 3.0 | 10.9% | coding (881/1794 nt) | hyaB | hydrogenase 1 large subunit |
| ? | NC_000913 | 1469296 = | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 3088323 = | 34 (0.720) | 5 (0.110) | 5/480 | 3.2 | 12.8% | coding (40/1395 nt) | galP | galactose:H(+) symporter |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 1299497 | 4 (0.080) | 6 (0.130) | 5/480 | 3.2 | 60.2% | intergenic (+252/‑70) | ychE/insH21 | MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator |
| ? | NC_000913 | = 1300694 | NA (NA) | intergenic (+147/‑488) | insH21/oppA | IS5 family transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 257907 | 0 (0.000) | 5 (0.110) | 5/468 | 3.2 | 100% | intergenic (+8/+16) | crl/insB9 | RNA polymerase holoenzyme assembly factor Crl/IS1 family transposase B |
| ? | NC_000913 | 258684 = | 0 (0.000) | pseudogene (9/331 nt) | crl | RNA polymerase holoenzyme assembly factor Crl | |||||
| * | ? | NC_000913 | = 3187426 | NA (NA) | 5 (0.100) | 5/484 | 3.3 | 11.4% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 3367749 | 39 (0.820) | intergenic (+107/‑78) | yhcF/yhcG | DUF1120 domain‑containing protein YhcF/DUF1016 domain‑containing protein YhcG | |||||
| * | ? | NC_000913 | = 280111 | NA (NA) | 4 (0.080) | 4/480 | 3.5 | 10.5% | noncoding (181/181 nt) | IS30 | repeat region |
| ? | NC_000913 | 3088323 = | 34 (0.720) | coding (40/1395 nt) | galP | galactose:H(+) symporter | |||||