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 | 3,526,448 | 0 | A | G | 74.1% | 91.3 / 34.9 | 58 | intergenic (‑299/‑21) | nudE/igaA | ADP‑sugar diphosphatase NudE/inner membrane protein ‑ inhibits the Rcs signaling pathway |
| * | NC_000913 | 226,023 | 0 | A | G | 44.7% | 86.2 / 155.0 | 123 | noncoding (265/2904 nt) | rrlH | 23S ribosomal RNA |
| * | NC_000913 | 3,240,978 | 0 | G | . | 42.9% | 59.6 / 54.9 | 35 | coding (1035/1245 nt) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 38.6% | 52.9 / 35.9 | 57 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,765,356 | 0 | A | G | 37.9% | 78.2 / 66.9 | 66 | R1058R (AGA→AGG) | rhsA | rhs element protein RhsA |
| * | NC_000913 | 3,926,366 | 0 | A | C | 37.5% | 50.0 / 15.0 | 40 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 1,428,652 | 0 | G | C | 36.4% | 289.1 / 243.0 | 184 | L25L (CTC→CTG) ‡ | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 1,428,654 | 0 | G | A | 36.4% | 225.2 / 186.9 | 184 | L25F (CTC→TTC) ‡ | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 1,428,669 | 0 | G | T | 35.0% | 358.2 / 156.4 | 163 | R20R (CGA→AGA) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 29,496 | 0 | T | A | 34.3% | 57.2 / 17.9 | 35 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 1,428,700 | 0 | A | G | 31.2% | 192.7 / 89.3 | 109 | D9D (GAT→GAC) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 2,001,918 | 0 | A | C | 29.4% | 56.4 / 10.1 | 35 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 28.0% | 75.6 / 33.1 | 50 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,428,686 | 0 | G | C | 27.3% | 328.9 / 120.2 | 128 | T14S (ACT→AGT) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 1,315,936 | 0 | T | A | 27.3% | 89.8 / 12.1 | 44 | K34* (AAA→TAA) | yciG | protein YciG |
| * | NC_000913 | 3,123,548 | 0 | A | G | 25.0% | 67.3 / 21.2 | 40 | R86R (CGT→CGC) | glcB | malate synthase G |
| * | NC_000913 | 1,659,264 | 0 | G | A | 24.1% | 91.8 / 29.7 | 54 | G399D (GGC→GAC) | ynfE | putative selenate reductase YnfE |
| * | NC_000913 | 1,428,712 | 0 | G | A | 22.4% | 175.9 / 39.3 | 76 | L5L (CTC→CTT) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 2,114,907 | 0 | T | C | 20.5% | 74.5 / 14.9 | 39 | I330M (ATA→ATG) | wcaM | putative colanic acid biosynthesis protein WcaM |
| Marginal new junction evidence (lowest skew 10 of 42 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2514272 | 30 (0.760) | 6 (0.150) | 6/224 | 3.2 | 16.7% | intergenic (+28/‑59) | nupC/insL‑3 | nucleoside:H(+) symporter NupC/putative IS186/IS421 transposase |
| ? | NC_000913 | = 2515617 | NA (NA) | noncoding (1345/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 19 (0.400) | 8/274 | 3.2 | 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 | 3045988 = | 57 (1.180) | 16 (0.360) | 7/256 | 3.3 | 27.9% | intergenic (‑87/+180) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase |
| ? | NC_000913 | 3046089 = | 30 (0.670) | intergenic (‑188/+79) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 20 (0.440) | 7/260 | 3.4 | 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 | = 25796 | NA (NA) | 9 (0.190) | 7/274 | 3.5 | NA | noncoding (1/34 nt) | other | REP2b |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 17 (0.380) | 6/256 | 3.6 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | = 2058107 | 55 (1.140) | 8 (0.220) +34 bp |
4/208 | 3.7 | 16.5% | intergenic (‑5/+96) | asnW/yeeO | tRNA‑Asn/FMN/FAD exporter |
| ? | NC_000913 | = 2070594 | 53 (1.090) | intergenic (+120/‑192) | yoeA/yeeP | CP4‑44 prophage; TonB‑dependent receptor plug domain‑containing protein YoeA/CP4‑44 prophage; putative GTP‑binding protein | |||||
| * | ? | NC_000913 | 1397239 = | 60 (1.410) | 5 (0.120) | 5/238 | 3.7 | 7.8% | intergenic (+147/‑126) | insH‑4/ynaJ | IS5 transposase and trans‑activator/DUF2534 domain‑containing protein YnaJ |
| ? | NC_000913 | 1427599 = | NA (NA) | noncoding (1196/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 377321 = | NA (NA) | 8 (0.170) | 6/268 | 3.8 | NA | intergenic (+10/+214) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 508817 | NA (NA) | noncoding (2/34 nt) | other | REP48e | |||||
| * | ? | NC_000913 | 374987 = | NA (NA) | 9 (0.210) | 5/250 | 3.9 | NA | noncoding (31/36 nt) | other | REP31b |
| ? | NC_000913 | 377366 = | NA (NA) | noncoding (31/37 nt) | other | REP32a | |||||