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 24 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,531,829 | 0 | A | G | 45.3% | 12.1 / 82.9 | 64 | T123A (ACC→GCC) | cysZ | sulfate:H(+) symporter |
| * | NC_000913 | 924,916 | 0 | T | C | 44.9% | 21.0 / 100.9 | 78 | D551D (GAT→GAC) | clpA | ATP‑dependent Clp protease ATP‑binding subunit ClpA |
| * | NC_000913 | 4,503,850 | 0 | T | C | 43.6% | 39.9 / 127.4 | 101 | intergenic (‑419/‑208) | insG/yjhB | KpLE2 phage‑like element; IS4 putative transposase/putative sialic acid transporter |
| * | NC_000913 | 1,978,434 | 1 | . | G | 36.7% | 46.5 / 98.4 | 60 | intergenic (‑237/+84) | flhD/insB‑5 | DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB |
| * | NC_000913 | 4,111,747 | 0 | G | T | 35.9% | 68.6 / 25.4 | 39 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,270,481 | 1 | . | C | 35.7% | 20.5 / 41.9 | 28 | noncoding (112/377 nt) | rnpB | RNase P catalytic RNA component |
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.0% | 77.6 / 28.6 | 60 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,509,360 | 0 | A | G | 34.1% | 95.1 / 83.1 | 91 | K25K (AAA→AAG) | hicA | toxin of the HicA‑HicB toxin‑antitoxin system |
| * | NC_000913 | 3,206,435 | 0 | C | T | 31.9% | 61.7 / 26.7 | 48 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 31.1% | 85.8 / 10.2 | 45 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 445,558 | 0 | A | C | 30.4% | 33.1 / 10.1 | 23 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 372,640 | 0 | T | G | 30.0% | 71.7 / 11.1 | 40 | L176V (TTA→GTA) | mhpD | 2‑hydroxypentadienoate hydratase |
| * | NC_000913 | 3,904,197 | 0 | T | C | 29.6% | 94.4 / 51.9 | 71 | T467T (ACA→ACG) | bglF | beta‑glucoside specific PTS enzyme II/BglG kinase/BglG phosphatase |
| * | NC_000913 | 501,564 | 0 | A | C | 29.4% | 56.4 / 13.7 | 34 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,420,787 | 1 | . | G | 28.9% | 130.8 / 105.6 | 83 | coding (104/423 nt) | ydaT | Rac prophage; protein YdaT |
| * | NC_000913 | 3,206,444 | 0 | T | A | 28.6% | 92.5 / 16.3 | 49 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 29,496 | 0 | T | A | 27.3% | 100.7 / 15.3 | 44 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 1,018,969 | 0 | A | . | 25.0% | 127.3 / 34.9 | 48 | intergenic (+32/+44) | matP/ompA | macrodomain Ter protein/outer membrane porin A |
| * | NC_000913 | 646,747 | 0 | T | G | 24.4% | 94.6 / 11.1 | 45 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 381,066 | 0 | T | C | 21.1% | 142.4 / 34.7 | 71 | pseudogene (195/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| Marginal new junction evidence (lowest skew 10 of 54 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 375100 | NA (NA) | 14 (0.250) | 11/236 | 3.3 | NA | noncoding (19/36 nt) | other | REP31d |
| ? | NC_000913 | = 377352 | NA (NA) | noncoding (17/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 377353 = | NA (NA) | 14 (0.270) +30 bp |
8/214 | 3.7 | NA | noncoding (18/37 nt) | other | REP32a |
| ? | NC_000913 | 4325850 = | NA (NA) | intergenic (‑109/+549) | yjdN/yjdM | conserved protein YjdN/conserved protein YjdM | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 11 (0.210) | 8/222 | 3.9 | 15.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 59 (1.100) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 374921 = | NA (NA) | 11 (0.240) | 6/188 | 3.9 | NA | intergenic (+40/‑538) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377531 = | NA (NA) | intergenic (+220/+4) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 377321 = | NA (NA) | 18 (0.280) | 10/266 | 4.0 | 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 | 377321 = | NA (NA) | 18 (0.270) | 10/272 | 4.1 | NA | intergenic (+10/+214) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | 4325851 = | NA (NA) | intergenic (‑110/+548) | yjdN/yjdM | conserved protein YjdN/conserved protein YjdM | |||||
| * | ? | NC_000913 | 375204 = | NA (NA) | 11 (0.170) +T |
10/272 | 4.1 | NA | noncoding (16/36 nt) | other | REP31f |
| ? | NC_000913 | 377351 = | NA (NA) | noncoding (16/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | = 25796 | NA (NA) | 18 (0.270) | 10/272 | 4.1 | 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 | 374922 = | NA (NA) | 9 (0.190) | 6/200 | 4.2 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375302 | NA (NA) | 7 (0.120) | 7/236 | 4.4 | NA | noncoding (19/36 nt) | other | REP31h |
| ? | NC_000913 | = 377352 | NA (NA) | noncoding (17/37 nt) | other | REP32a | |||||