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 45 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,979 | 0 | G | A | 77.1% | 94.2 / 19.6 | 48 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,508,682 | 0 | T | . | 57.7% | 69.1 / inf | 149 | intergenic (‑65/‑327) | insI3/insO | IS30 family transposase/IS911B regulator fragment |
| * | NC_000913 | 4,508,683 | 0 | G | . | 57.0% | 20.2 / inf | 151 | intergenic (‑66/‑326) | insI3/insO | IS30 family transposase/IS911B regulator fragment |
| * | NC_000913 | 3,911,533 | 0 | C | A | 35.6% | 159.0 / 28.1 | 118 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 1,922,815 | 0 | C | A | 35.0% | 130.8 / 26.1 | 100 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| * | NC_000913 | 4,136,467 | 0 | A | C | 34.3% | 90.1 / 16.6 | 67 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 2,477,265 | 0 | A | C | 33.7% | 153.6 / 27.5 | 89 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 4,296,268 | 0 | T | C | 33.3% | 67.4 / 38.7 | 54 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,427,992 | 0 | G | T | 31.9% | 203.7 / 14.3 | 135 | P245P (CCC→CCA) | insH5 | IS5 family transposase and trans‑activator |
| * | NC_000913 | 2,767,445 | 0 | C | A | 30.6% | 221.9 / 12.9 | 108 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,772,966 | 0 | G | T | 30.4% | 146.4 / 13.3 | 102 | intergenic (‑812/‑352) | yfjU/yfjW | putative arsenate reductase‑like protein YfjU/uncharacterized protein YfjW |
| * | NC_000913 | 58,065 | 0 | C | A | 30.1% | 183.3 / 13.6 | 104 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 1,097,118 | 0 | C | A | 30.0% | 68.9 / 16.5 | 50 | intergenic (+289/+447) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 847,955 | 0 | G | A | 28.7% | 190.7 / 46.9 | 130 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 2,288,418 | 0 | G | T | 28.7% | 231.2 / 20.0 | 129 | pseudogene (497/2525 nt) | yejO | adhesin‑like autotransporter YejO |
| * | NC_000913 | 2,047,219 | 0 | C | A | 28.4% | 311.5 / 13.1 | 148 | S761* (TCG→TAG) | yeeJ | inverse autotransporter adhesin |
| * | NC_000913 | 3,054,894 | 0 | G | T | 28.3% | 176.7 / 25.6 | 106 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,246,779 | 0 | C | A | 28.3% | 216.0 / 15.5 | 138 | intergenic (‑10/+284) | cirA/lysP | iron‑catecholate outer membrane transporter CirA/lysine:H(+) symporter |
| * | NC_000913 | 4,360,965 | 0 | C | A | 28.2% | 255.7 / 11.3 | 124 | E324* (GAG→TAG) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 4,184,560 | 0 | C | A | 28.1% | 186.4 / 10.5 | 96 | R1106S (CGT→AGT) | rpoB | RNA polymerase subunit beta |
| Marginal new junction evidence (lowest skew 10 of 74 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4507459 = | NA (NA) | 27 (0.240) | 23/596 | 4.4 | 32.9% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 4614238 | 55 (0.490) | coding (758/780 nt) | yjjV | putative metal‑dependent hydrolase YjjV | |||||
| * | ? | NC_000913 | 3499636 = | 112 (1.000) | 26 (0.230) | 23/598 | 4.4 | 18.8% | intergenic (+21/‑274) | yhfL/frlA | DUF4223 domain‑containing lipoprotein YhfL/fructoselysine/psicoselysine transporter |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 3499637 | 109 (0.970) | 24 (0.210) | 22/598 | 4.6 | 18.1% | intergenic (+22/‑273) | yhfL/frlA | DUF4223 domain‑containing lipoprotein YhfL/fructoselysine/psicoselysine transporter |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 3169131 = | 109 (0.970) | 27 (0.240) | 22/598 | 4.6 | 19.9% | coding (101/483 nt) | ygiV | DNA‑binding transcriptional repressor YgiV |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 1909271 = | 99 (0.880) | 23 (0.210) | 22/596 | 4.6 | 18.9% | intergenic (+107/+37) | yobH/kdgR | uncharacterized protein YobH/DNA‑binding transcriptional repressor KdgR |
| ? | NC_000913 | 4507459 = | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 270541 = | NA (NA) | 23 (0.200) | 21/598 | 4.9 | 15.5% | noncoding (1/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 1555642 = | 125 (1.110) | coding (28/1698 nt) | maeA | malate dehydrogenase (oxaloacetate‑decarboxylating) | |||||
| * | ? | NC_000913 | = 2945062 | 51 (0.450) | 26 (0.230) | 20/598 | 5.1 | 33.8% | coding (781/807 nt) | tcdA | tRNA threonylcarbamoyladenosine dehydratase |
| ? | NC_000913 | = 4508679 | NA (NA) | noncoding (1/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | 1469296 = | NA (NA) | 24 (0.210) | 18/598 | 5.6 | 17.6% | noncoding (1/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 3169132 | 112 (1.000) | coding (100/483 nt) | ygiV | DNA‑binding transcriptional repressor YgiV | |||||
| * | ? | NC_000913 | 1469296 = | NA (NA) | 19 (0.170) | 16/592 | 6.0 | 16.0% | noncoding (1/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | = 1909272 | 100 (0.900) | intergenic (+108/+36) | yobH/kdgR | uncharacterized protein YobH/DNA‑binding transcriptional repressor KdgR | |||||
| * | ? | NC_000913 | = 2653419 | 98 (0.870) | 14 (0.140) | 14/548 | 6.1 | 14.3% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 78 (0.760) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||