mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 43 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,911,533 | 0 | C | A | 41.2% | 147.3 / 31.2 | 131 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 4,427,822 | 0 | C | A | 35.9% | 170.2 / 12.0 | 106 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 2,767,445 | 0 | C | A | 32.9% | 160.2 / 19.6 | 83 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,401,345 | 0 | G | T | 32.1% | 189.0 / 13.3 | 109 | intergenic (‑258/+47) | mreB/csrD | dynamic cytoskeletal protein MreB/regulator of CsrB and CsrC decay |
| * | NC_000913 | 2,722,838 | 0 | G | T | 31.9% | 212.9 / 15.5 | 116 | E38* (GAG→TAG) | pssA | phosphatidylserine synthase |
| * | NC_000913 | 2,990,480 | 0 | C | A | 31.7% | 290.9 / 29.0 | 167 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 2,288,418 | 0 | G | T | 31.3% | 220.1 / 24.7 | 134 | pseudogene (497/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| * | NC_000913 | 847,955 | 0 | G | A | 31.3% | 148.5 / 46.7 | 115 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 2,427,716 | 0 | C | A | 30.9% | 208.7 / 16.3 | 111 | E26* (GAG→TAG) | argT | lysine/arginine/ornithine ABC transporter periplasmic binding protein |
| * | NC_000913 | 2,073,613 | 0 | G | T | 30.2% | 160.3 / 16.3 | 86 | R692L (CGG→CTG) | flu | self recognizing antigen 43 (Ag43) autotransporter |
| * | NC_000913 | 58,065 | 0 | C | A | 30.0% | 159.5 / 15.3 | 100 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 1,922,815 | 0 | C | A | 30.0% | 144.8 / 21.3 | 100 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| * | NC_000913 | 141,849 | 0 | C | A | 29.5% | 254.1 / 17.0 | 140 | P140Q (CCG→CAG) | hpt | hypoxanthine phosphoribosyltransferase |
| * | NC_000913 | 4,360,965 | 0 | C | A | 29.5% | 353.2 / 20.5 | 173 | E324* (GAG→TAG) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 4,296,268 | 0 | T | C | 29.0% | 39.1 / 12.9 | 31 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,054,886 | 0 | G | T | 28.9% | 224.4 / 30.6 | 129 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 1,779,583 | 0 | G | T | 28.7% | 207.5 / 13.9 | 115 | intergenic (‑282/‑34) | ydiP/ydiQ | putative DNA‑binding transcriptional regulator YdiP/putative electron transfer flavoprotein subunit YdiQ |
| * | NC_000913 | 3,054,894 | 0 | G | T | 28.6% | 192.3 / 23.2 | 120 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,876,715 | 0 | G | T | 28.3% | 236.0 / 16.2 | 127 | P45P (CCG→CCT) | iap | alkaline phosphatase isozyme conversion protein |
| * | NC_000913 | 1,502,772 | 0 | G | A | 28.3% | 189.2 / 37.0 | 120 | A106T (GCG→ACG) | ydcL | DUF3313 domain‑containing lipoprotein YdcL |
| Marginal new junction evidence (lowest skew 10 of 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4057551 | 102 (1.020) | 26 (0.260) | 21/590 | 3.5 | 20.3% | coding (484/1410 nt) | glnA | glutamine synthetase |
| ? | NC_000913 | = 4499511 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4057547 = | 95 (0.950) | 25 (0.250) | 18/590 | 4.1 | 20.8% | coding (488/1410 nt) | glnA | glutamine synthetase |
| ? | NC_000913 | 4498181 = | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4542682 = | 133 (1.330) | 17 (0.180) | 16/572 | 4.4 | 12.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 116 (1.200) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 3186096 = | NA (NA) | 18 (0.180) | 16/588 | 4.5 | 13.2% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4353014 | 118 (1.190) | coding (107/174 nt) | ghoT | toxin of the GhoTS toxin‑antitoxin system | |||||
| * | ? | NC_000913 | = 3187426 | NA (NA) | 15 (0.150) | 13/588 | 5.3 | 11.1% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 4353010 = | 120 (1.210) | coding (103/174 nt) | ghoT | toxin of the GhoTS toxin‑antitoxin system | |||||
| * | ? | NC_000913 | = 696741 | 68 (0.680) | 11 (0.150) | 8/434 | 5.4 | 15.3% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 72 (0.980) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 4606166 | 90 (0.900) | 8 (0.110) | 7/412 | 5.5 | 12.5% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 49 (0.700) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 781282 | 73 (0.730) | 12 (0.120) | 12/574 | 5.5 | 14.5% | intergenic (+60/‑87) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 781771 = | 70 (0.720) | intergenic (+119/‑314) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 2947467 | 72 (0.720) | 8 (0.110) | 7/424 | 5.6 | 15.4% | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| ? | NC_000913 | 2947688 = | 36 (0.500) | intergenic (+5/+69) | metV/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase C | |||||
| * | ? | NC_000913 | = 2753991 | 84 (0.840) | 13 (0.130) | 11/590 | 5.9 | 13.4% | intergenic (+45/+17) | bamE/yfjF | outer membrane protein assembly factor BamE/putative component of the Rsx system |
| ? | NC_000913 | = 4503515 | NA (NA) | noncoding (1/1426 nt) | IS4 | repeat region | |||||