mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 106 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 993,913 | 0 | G | C | 63.0% | 9.0 / 28.1 | 27 | G44G (GGC→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 2,386,862 | 0 | G | A | 61.9% | ‑6.3 / 41.3 | 42 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 993,917 | 0 | A | C | 60.7% | 12.8 / 26.1 | 28 | V43G (GTG→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 75,079 | 0 | C | T | 60.0% | 5.3 / 27.4 | 25 | L134L (CTG→CTA) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 993,904 | 0 | A | C | 58.3% | 24.4 / 30.5 | 25 | G47G (GGT→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 3,947,850 | 0 | C | T | 57.1% | 12.6 / 49.3 | 42 | E40K (GAA→AAA) | hdfR | flhDC operon transcriptional repressor |
| * | NC_000913 | 3,206,435 | 0 | C | T | 56.4% | 5.7 / 41.8 | 39 | intergenic (‑179/‑28) | ttdR/ttdA | transcriptional activator of ttdABT/L‑tartrate dehydratase, alpha subunit |
| * | NC_000913 | 501,564 | 0 | A | C | 55.9% | 28.8 / 41.7 | 34 | *559E (TAA→GAA) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 75,091 | 0 | G | T | 55.2% | 19.0 / 41.1 | 29 | D130E (GAC→GAA) | thiB | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,947,831 | 0 | T | G | 54.8% | 30.7 / 50.5 | 43 | N46T (AAC→ACC) | hdfR | flhDC operon transcriptional repressor |
| * | NC_000913 | 328,807 | 0 | A | T | 54.5% | 10.1 / 41.9 | 33 | D176E (GAT→GAA) | betI | choline‑inducible betIBA‑betT divergent operon transcriptional repressor |
| * | NC_000913 | 501,575 | 0 | A | C | 54.3% | 33.3 / 43.7 | 35 | V555G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 357,880 | 0 | T | C | 53.6% | 14.2 / 31.4 | 28 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 2,151,581 | 0 | G | T | 53.3% | 21.5 / 43.1 | 32 | D133Y (GAT→TAT) | yegJ | uncharacterized protein |
| * | NC_000913 | 2,550,055 | 0 | A | C | 52.0% | 38.2 / 41.7 | 25 | V164G (GTG→GGG) | yfeX | porphyrinogen oxidase, cytoplasmic |
| * | NC_000913 | 3,285,853 | 0 | G | T | 51.7% | 25.5 / 44.3 | 29 | A126S (GCC→TCC) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | NC_000913 | 328,803 | 0 | T | G | 51.5% | 9.6 / 47.6 | 33 | T178P (ACC→CCC) | betI | choline‑inducible betIBA‑betT divergent operon transcriptional repressor |
| * | NC_000913 | 3,001,164 | 0 | A | C | 51.5% | 46.1 / 56.9 | 33 | T274P (ACC→CCC) | xdhA | xanthine dehydrogenase, molybdenum binding subunit |
| * | NC_000913 | 987,551 | 0 | G | A | 48.3% | 8.7 / 22.7 | 30 | intergenic (‑569/+34) | ompF/asnS | outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase |
| * | NC_000913 | 1,157,289 | 0 | A | G | 47.7% | 38.4 / 14.4 | 44 | G171G (GGA→GGG) | ycfH | putative DNase |
| Marginal new junction evidence (lowest skew 10 of 130 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1432648 | NA (NA) | 41 (0.790) | 16/280 | 1.3 | 12.8% | coding (238/576 nt) | tfaR | Rac prophage; putative tail fiber assembly protein |
| ? | NC_000913 | 1634576 = | 294 (5.380) | coding (310/576 nt) | tfaQ | Qin prophage; putative tail fibre assembly protein | |||||
| * | ? | NC_000913 | = 1622333 | 5160 (94.460) | 28 (0.540) | 13/280 | 1.8 | 0.53% | coding (1002/1188 nt) | ydeE | putative transporter |
| ? | NC_000913 | = 1622355 | 5681 (109.980) | coding (1024/1188 nt) | ydeE | putative transporter | |||||
| * | ? | NC_000913 | 1622824 = | 4773 (87.380) | 12 (0.230) | 11/284 | 2.1 | 0.26% | intergenic (+83/+136) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| ? | NC_000913 | 1622844 = | 4764 (90.920) | intergenic (+103/+116) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing | |||||
| * | ? | NC_000913 | = 1622778 | 4280 (78.350) | 22 (0.430) | 11/276 | 2.1 | 0.52% | intergenic (+37/+182) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
| ? | NC_000913 | = 1622789 | 4498 (88.350) | intergenic (+48/+171) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing | |||||
| * | ? | NC_000913 | 1620217 = | 6961 (127.430) | 14 (0.270) | 9/282 | 2.6 | 0.21% | intergenic (+10/+21) | marB/eamA | periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system |
| ? | NC_000913 | 1620235 = | 6558 (126.060) | intergenic (+28/+3) | marB/eamA | periplasmic mar operon regulator/cysteine and O‑acetyl‑L‑serine efflux system | |||||
| * | ? | NC_000913 | 326549 = | 44 (0.810) | 8 (0.160) | 8/276 | 2.7 | 16.0% | coding (699/1671 nt) | betA | choline dehydrogenase, a flavoprotein |
| ? | NC_000913 | 326652 = | 43 (0.840) | coding (596/1671 nt) | betA | choline dehydrogenase, a flavoprotein | |||||
| * | ? | NC_000913 | = 1616905 | 525 (9.610) | 8 (0.160) | 7/276 | 3.0 | 1.6% | intergenic (+27/‑123) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | = 1616917 | 511 (10.040) | intergenic (+39/‑111) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | = 395765 | 48 (0.880) | 7 (0.140) | 7/278 | 3.0 | 14.6% | coding (523/1158 nt) | ampH | D‑alanyl‑D‑alanine‑ carboxypeptidase/endopeptidase; penicillin‑binding protein; weak beta‑lactamase |
| ? | NC_000913 | = 395835 | 37 (0.720) | coding (453/1158 nt) | ampH | D‑alanyl‑D‑alanine‑ carboxypeptidase/endopeptidase; penicillin‑binding protein; weak beta‑lactamase | |||||
| * | ? | NC_000913 | = 1604992 | 471 (8.620) | 10 (0.190) | 7/282 | 3.1 | 2.1% | coding (946/993 nt) | lsrD | autoinducer 2 import system permease protein |
| ? | NC_000913 | = 1605005 | 479 (9.210) | coding (959/993 nt) | lsrD | autoinducer 2 import system permease protein | |||||
| * | ? | NC_000913 | = 3880655 | 39 (0.710) | 6 (0.120) | 6/276 | 3.3 | 14.9% | coding (567/1074 nt) | recF | gap repair protein |
| ? | NC_000913 | = 3880717 | 32 (0.630) | coding (505/1074 nt) | recF | gap repair protein | |||||