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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 38.9% | 62.4 / 58.1 | 54 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 501,575 | 0 | A | C | 31.2% | 49.7 / 12.9 | 32 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,286,965 | 0 | A | G | 30.8% | 55.0 / 28.5 | 39 | D86G (GAC→GGC) | ychS | putative uncharacterized protein YchS |
| * | NC_000913 | 1,286,974 | 0 | C | T | 30.8% | 64.0 / 27.6 | 39 | A89V (GCC→GTC) | ychS | putative uncharacterized protein YchS |
| * | NC_000913 | 1,286,983 | 0 | A | G | 30.8% | 54.7 / 31.2 | 39 | *92W (TAG→TGG) | ychS | putative uncharacterized protein YchS |
| * | NC_000913 | 4,604,344 | 0 | C | T | 30.4% | 74.7 / 17.5 | 46 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 650,809 | 0 | T | G | 30.0% | 80.9 / 15.6 | 50 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,404,215 | 0 | T | G | 27.3% | 53.4 / 13.9 | 33 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 331,618 | 0 | A | . | 26.8% | 221.2 / 70.8 | 82 | intergenic (+122/‑184) | betT/yahV | choline:H(+) symporter/protein YahV |
| * | NC_000913 | 753,125 | 0 | T | A | 26.7% | 62.3 / 10.9 | 30 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,401,459 | 0 | T | C | 26.3% | 114.5 / 15.2 | 57 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 4,287,719 | 0 | T | A | 25.4% | 127.7 / 21.9 | 55 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 2,326,450 | 0 | T | G | 24.4% | 78.0 / 15.6 | 41 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 501,564 | 0 | A | C | 24.2% | 56.2 / 18.4 | 33 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 445,558 | 0 | A | C | 24.1% | 49.7 / 10.7 | 29 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 1,287,202 | 0 | A | G | 21.2% | 80.4 / 13.8 | 33 | noncoding (35/171 nt) | rttR | small RNA RttR |
| * | NC_000913 | 646,760 | 0 | T | C | 20.4% | 110.7 / 11.1 | 50 | K250K (AAA→AAG) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| 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 | = 4542690 | 60 (1.040) | 11 (0.200) | 10/258 | 3.1 | 17.3% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 49 (0.910) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 12 (0.220) | 8/260 | 3.6 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 4542682 = | 71 (1.230) | 7 (0.130) | 7/258 | 3.9 | 10.8% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 49 (0.910) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 375059 | NA (NA) | 6 (0.100) +T |
6/274 | 4.4 | NA | noncoding (28/34 nt) | other | REP31c |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 8 (0.140) | 5/274 | 4.8 | NA | coding (243/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 4436105 | 50 (0.870) | 3 (0.060) | 3/256 | 5.4 | 6.9% | coding (461/1944 nt) | cpdB | 2'3' cyclic nucleotide phosphodiesterase/3' nucleotidase |
| ? | NC_000913 | = 4436247 | 35 (0.650) | coding (319/1944 nt) | cpdB | 2'3' cyclic nucleotide phosphodiesterase/3' nucleotidase | |||||
| * | ? | NC_000913 | 3045988 = | 41 (0.710) | 3 (0.060) | 3/256 | 5.4 | 9.0% | intergenic (‑87/+180) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase |
| ? | NC_000913 | 3046089 = | 23 (0.430) | intergenic (‑188/+79) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase | |||||
| * | ? | NC_000913 | = 346214 | 76 (1.320) | 3 (0.050) | 3/270 | 5.6 | 3.9% | coding (124/672 nt) | yahN | putative amino acid exporter |
| ? | NC_000913 | 346218 = | 73 (1.290) | coding (120/672 nt) | yahN | putative amino acid exporter | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 4 (0.070) | 3/276 | 5.7 | 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 | 381258 = | NA (NA) | 5 (0.090) | 3/274 | 5.7 | NA | pseudogene (3/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||