mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 49 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 1,097,580 | 0 | C | T | 32.8% | 63.6 / 63.2 | 67 | intergenic (+329/+45) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 4,291,309 | 0 | T | A | 29.3% | 189.8 / 43.1 | 92 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 3,974,713 | 0 | G | T | 28.9% | 314.5 / 44.9 | 135 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NC_007779 | 4,609,024 | 0 | C | T | 27.2% | 160.6 / 28.6 | 81 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NC_007779 | 3,004,668 | 0 | C | T | 26.2% | 284.5 / 34.9 | 126 | intergenic (‑226/‑253) | Y75_RS14955/ygeW | sigma‑54‑dependent transcriptional regulator/knotted carbamoyltransferase YgeW |
| * | NC_007779 | 2,902,348 | 0 | C | A | 26.0% | 348.1 / 53.6 | 123 | intergenic (+318/+1055) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 753,547 | 0 | T | A | 25.9% | 268.9 / 31.8 | 108 | intergenic (‑330/+60) | Y75_RS03720/gltA | type 1 fimbrial protein/citrate (Si)‑synthase |
| * | NC_007779 | 2,488,714 | 0 | T | A | 25.3% | 365.9 / 43.4 | 158 | L24F (TTA→TTT) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 29,496 | 0 | T | A | 25.2% | 299.8 / 45.1 | 119 | intergenic (+301/‑155) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 4,261,288 | 0 | T | G | 25.0% | 180.3 / 11.4 | 81 | V195G (GTT→GGT) | lexA | repressor LexA |
| * | NC_007779 | 658,098 | 0 | A | C | 24.7% | 220.0 / 19.2 | 97 | V88G (GTG→GGG) | crcB | fluoride efflux transporter CrcB |
| * | NC_007779 | 1,437,441 | 0 | G | A | 23.7% | 286.3 / 38.3 | 114 | intergenic (‑108/+33) | uspF/ompN | universal stress protein UspF/porin OmpN |
| * | NC_007779 | 2,188,533 | 0 | T | G | 23.5% | 240.7 / 23.3 | 102 | T35P (ACC→CCC) | thiM | hydroxyethylthiazole kinase |
| * | NC_007779 | 3,475,533 | 0 | C | T | 23.5% | 261.8 / 33.3 | 115 | E10K (GAA→AAA) | fabR | HTH‑type transcriptional repressor FabR |
| * | NC_007779 | 2,983,379 | 0 | A | G | 23.3% | 171.4 / 13.2 | 73 | I290I (ATT→ATC) | Y75_RS14830 | acetyl‑CoA C‑acetyltransferase |
| * | NC_007779 | 2,488,700 | 0 | G | A | 23.3% | 388.0 / 35.6 | 159 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 558,404 | 0 | G | A | 23.2% | 329.7 / 20.6 | 142 | E70K (GAA→AAA) | fimC | type 1 fimbria chaperone FimC |
| * | NC_007779 | 1,015,938 | 0 | G | T | 22.8% | 301.1 / 22.8 | 114 | intergenic (+57/‑199) | pqiC/rmf | membrane integrity‑associated transporter subunit PqiC/ribosome modulation factor |
| * | NC_007779 | 29,486 | 0 | C | A | 22.7% | 322.6 / 37.0 | 110 | intergenic (+291/‑165) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 2,004,055 | 0 | A | C | 22.6% | 212.2 / 14.7 | 84 | intergenic (‑129/+192) | Y75_RS10125/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_007779 | 4310363 = | NA (NA) | 63 (0.460) | 56/496 | 4.7 | 100% | intergenic (‑287/‑32) | yjcS/Y75_RS21310 | alkyl sulfatase YjcS/IS5‑like element IS5 family transposase |
| ? | NC_007779 | = 4540919 | 0 (0.000) | intergenic (+208/+375) | Y75_RS22495/Y75_RS22500 | hypothetical protein/9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase | |||||
| * | ? | NC_007779 | 1413613 = | 131 (0.960) | 15 (0.120) | 15/444 | 14.6 | 10.7% | coding (50/936 nt) | ttcA | tRNA 2‑thiocytidine(32) synthetase TtcA |
| ? | NC_007779 | = 1436672 | 134 (1.100) | intergenic (+39/+227) | Y75_RS24865/uspF | hypothetical protein/universal stress protein UspF | |||||
| * | ? | NC_007779 | = 2069490 | 150 (1.100) | 59 (0.430) | 14/496 | 16.6 | 44.0% | intergenic (‑32/+1) | Y75_RS10470/Y75_RS24935 | IS5‑like element IS5 family transposase/hypothetical protein |
| ? | NC_007779 | = 4540919 | 0 (0.000) | intergenic (+208/+375) | Y75_RS22495/Y75_RS22500 | hypothetical protein/9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase | |||||