mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
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 | 4,606,094 | 0 | G | C | 57.9% | ‑1.5 / 19.6 | 19 | noncoding (72/87 nt) | leuV | tRNA‑Leu |
| * | NC_000913 | 1,209,420 | 0 | C | G | 51.8% | 11.1 / 36.7 | 28 | pseudogene (200/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| * | NC_000913 | 1,984,188 | 0 | C | G | 45.2% | 19.6 / 39.4 | 31 | G294G (GGG→GGC) | araG | L‑arabinose ABC transporter ATPase |
| * | NC_000913 | 3,770,231 | 0 | C | G | 44.4% | 15.1 / 14.5 | 18 | intergenic (+85/+12) | yibU/yibH | pseudogene, H repeat‑associated protein/putative membrane fusion protein (MFP) component of efflux pump |
| * | NC_000913 | 1,041,386 | 0 | G | C | 43.8% | 24.8 / 26.0 | 32 | G257A (GGA→GCA) | appA | phosphoanhydride phosphorylase |
| * | NC_000913 | 1,081,353 | 0 | G | C | 43.3% | 40.9 / 18.4 | 30 | intergenic (+540/‑3) | putP/efeU | proline:sodium symporter/ferrous iron permease (pseudogene) |
| * | NC_000913 | 1,527,602 | 0 | G | C | 40.7% | 21.1 / 26.1 | 27 | intergenic (+450/‑300) | yncH/rhsE | IPR020099 family protein/pseudogene, Rhs family |
| * | NC_000913 | 1,135,975 | 0 | G | C | 39.3% | 27.9 / 25.3 | 30 | A138P (GCC→CCC) | flgH | flagellar protein of basal‑body outer‑membrane L ring |
| * | NC_000913 | 2,878,956 | 0 | C | T | 39.3% | 24.0 / 23.1 | 28 | A273T (GCC→ACC) | ygbT | multifunctional endonuclease Cas1, CRISPR adaptation protein; DNA repair enzyme |
| * | NC_000913 | 1,308,749 | 0 | G | C | 38.1% | 29.5 / 13.6 | 21 | intergenic (‑104/‑39) | clsA/yciY | cardiolipin synthase 1/uncharacterized protein |
| * | NC_000913 | 2,778,212 | 0 | C | G | 36.4% | 52.2 / 16.0 | 33 | G1505G (GGG→GGC) | ypjA | adhesin‑like autotransporter |
| * | NC_000913 | 4,296,060 | 0 | C | T | 34.9% | 51.9 / 38.0 | 44 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 2,035,587 | 0 | C | G | 32.6% | 61.4 / 19.7 | 45 | intergenic (+344/‑248) | yedS/hchA | pseudogene, outer membrane protein homology; putative outer membrane protein/glyoxalase III and Hsp31 molecular chaperone |
| * | NC_000913 | 34,508 | 0 | G | C | 25.7% | 85.2 / 13.9 | 36 | G70A (GGA→GCA) | caiF | cai operon transcriptional activator |
| * | NC_000913 | 4,338,130 | 0 | G | C | 23.1% | 63.2 / 12.5 | 26 | intergenic (‑201/+124) | adiY/adiA | adi system transcriptional activator/arginine decarboxylase |
| * | NC_000913 | 2,779,939 | 0 | C | G | 22.6% | 72.7 / 10.2 | 32 | A930P (GCA→CCA) | ypjA | adhesin‑like autotransporter |
| Marginal new junction evidence (lowest skew 10 of 59 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1396707 = | NA (NA) | 5 (0.180) | 5/120 | 2.0 | 16.9% | noncoding (664/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1428032 | 27 (0.880) | noncoding (763/1196 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 4200145 = | 28 (0.910) | 4 (0.160) | 4/110 | 2.1 | 18.9% | intergenic (+51/‑136) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit |
| ? | NC_000913 | 4200182 = | 11 (0.430) | intergenic (+88/‑99) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit | |||||
| * | ? | NC_000913 | 2721524 = | 31 (1.010) | 4 (0.150) | 4/112 | 2.1 | 14.0% | coding (1572/2661 nt) | pka | protein lysine acetyltransferase |
| ? | NC_000913 | 2721614 = | 23 (0.890) | coding (1662/2661 nt) | pka | protein lysine acetyltransferase | |||||
| * | ? | NC_000913 | = 2333629 | 15 (0.490) | 4 (0.150) | 4/112 | 2.1 | 18.7% | pseudogene (774/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| ? | NC_000913 | = 2334464 | 22 (0.850) | coding (496/624 nt) | yfaT | DUF1175 family protein, putative host defense protein | |||||
| * | ? | NC_000913 | = 286650 | 20 (0.650) | 4 (0.150) | 4/112 | 2.1 | 16.0% | coding (1256/1383 nt) | yagG | CP4‑6 prophage; putative sugar transporter |
| ? | NC_000913 | = 286682 | 25 (0.960) | coding (1288/1383 nt) | yagG | CP4‑6 prophage; putative sugar transporter | |||||
| * | ? | NC_000913 | = 1827132 | 33 (1.080) | 4 (0.150) | 4/114 | 2.2 | 13.2% | coding (1128/1344 nt) | astB | succinylarginine dihydrolase |
| ? | NC_000913 | = 1827166 | 24 (0.910) | coding (1094/1344 nt) | astB | succinylarginine dihydrolase | |||||
| * | ? | NC_000913 | 1164698 = | 32 (1.040) | 4 (0.150) | 4/114 | 2.2 | 11.5% | coding (604/1026 nt) | nagZ | beta N‑acetyl‑glucosaminidase |
| ? | NC_000913 | 1165027 = | 34 (1.290) | coding (933/1026 nt) | nagZ | beta N‑acetyl‑glucosaminidase | |||||
| * | ? | NC_000913 | = 3647716 | 39 (1.270) | 4 (0.150) | 4/118 | 2.3 | 10.7% | coding (73/84 nt) | dinQ | UV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system |
| ? | NC_000913 | = 3647918 | 32 (1.170) | intergenic (‑130/‑145) | dinQ/agrA | UV‑inducible membrane toxin, DinQ‑AgrB type I toxin‑antitoxin system/inactive antisense sRNA | |||||
| * | ? | NC_000913 | 3538165 = | 28 (0.910) | 4 (0.150) | 4/118 | 2.3 | 16.7% | coding (781/2322 nt) | yhgF | putative transcriptional accessory protein |
| ? | NC_000913 | 3538246 = | 15 (0.550) | coding (862/2322 nt) | yhgF | putative transcriptional accessory protein | |||||
| * | ? | NC_000913 | = 1892117 | 26 (0.850) | 4 (0.140) | 4/120 | 2.3 | 13.7% | coding (1119/1911 nt) | yoaA | putative ATP‑dependent helicase, DinG family |
| ? | NC_000913 | = 1892190 | 27 (0.970) | coding (1046/1911 nt) | yoaA | putative ATP‑dependent helicase, DinG family | |||||