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 | 63.2% | 25.9 / 37.3 | 38 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,986 | 0 | G | A | 63.2% | 26.0 / 40.3 | 38 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,361,183 | 0 | C | A | 42.3% | 118.6 / 227.7 | 175 | S251I (AGC→ATC) | cadC | DNA‑binding transcriptional activator CadC |
| * | NC_000913 | 388,967 | 0 | T | C | 40.2% | 54.2 / 118.0 | 92 | D254G (GAC→GGC) | hemB | porphobilinogen synthase |
| * | NC_000913 | 2,477,265 | 0 | A | C | 37.2% | 146.7 / 37.7 | 94 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 339,992 | 0 | C | . | 36.8% | 68.0 / 56.7 | 38 | coding (224/321 nt) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 847,955 | 0 | G | A | 35.4% | 163.8 / 49.0 | 127 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,351,463 | 0 | C | A | 34.6% | 119.9 / 12.3 | 81 | E100* (GAG→TAG) | ycjD | DUF559 domain‑containing protein YcjD |
| * | NC_000913 | 2,767,445 | 0 | C | A | 33.9% | 228.6 / 31.5 | 123 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,911,533 | 0 | C | A | 32.9% | 248.5 / 21.4 | 149 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 3,741,871 | 0 | G | T | 32.4% | 186.2 / 15.2 | 108 | S221Y (TCC→TAC) | plaR | DNA‑binding transcriptional repressor PlaR |
| * | NC_000913 | 3,054,894 | 0 | G | T | 32.0% | 150.1 / 25.3 | 98 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 3,269,943 | 0 | G | T | 31.4% | 99.4 / 15.4 | 70 | intergenic (+341/+273) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| * | NC_000913 | 2,990,480 | 0 | C | A | 31.1% | 326.9 / 29.4 | 180 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 1,922,815 | 0 | C | A | 31.0% | 131.6 / 21.4 | 87 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| * | NC_000913 | 85,651 | 0 | G | T | 30.6% | 166.8 / 12.6 | 112 | E8* (GAG→TAG) | ilvI | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| * | NC_000913 | 2,767,444 | 0 | C | A | 30.6% | 254.1 / 10.7 | 124 | intergenic (+89/‑266) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 1,820,763 | 0 | G | T | 30.4% | 173.5 / 10.1 | 93 | S151Y (TCC→TAC) | chbC | N,N'‑diacetylchitobiose‑specific PTS enzyme IIC component |
| * | NC_000913 | 2,457,177 | 0 | T | G | 30.3% | 168.5 / 16.8 | 91 | G661G (GGA→GGC) | fadJ | 3‑hydroxyacyl‑CoA dehydrogenase FadJ |
| * | NC_000913 | 2,767,447 | 0 | C | A | 30.1% | 289.4 / 12.7 | 133 | intergenic (+92/‑263) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2653419 | 79 (0.760) | 10 (0.110) | 10/548 | 6.4 | 11.9% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 75 (0.790) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 696741 | 69 (0.670) | 7 (0.090) | 5/442 | 7.3 | 12.4% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 48 (0.630) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | = 2357664 | 129 (1.250) | 10 (0.100) | 8/576 | 7.5 | 7.6% | coding (761/900 nt) | rpnE | inactive recombination‑promoting nuclease‑like protein RpnE |
| ? | NC_000913 | 2357848 = | 120 (1.200) | intergenic (+45/+194) | rpnE/yfaU | inactive recombination‑promoting nuclease‑like protein RpnE/2‑keto‑3‑deoxy‑L‑rhamnonate aldolase | |||||
| * | ? | NC_000913 | = 781222 | 56 (0.540) | 4 (0.050) | 4/446 | 8.0 | 7.6% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 56 (0.730) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 2063221 | 108 (1.040) | 5 (0.050) | 4/592 | 9.6 | 4.4% | coding (103/933 nt) | ldtA | L,D‑transpeptidase LdtA |
| ? | NC_000913 | 2063238 = | 108 (1.060) | coding (86/933 nt) | ldtA | L,D‑transpeptidase LdtA | |||||
| * | ? | NC_000913 | = 610995 | 82 (0.790) | 3 (0.030) | 3/596 | 10.3 | 3.6% | coding (1500/2241 nt) | fepA | ferric enterobactin outer membrane transporter |
| ? | NC_000913 | 611101 = | 78 (0.760) | coding (1394/2241 nt) | fepA | ferric enterobactin outer membrane transporter | |||||