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 71 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,304,549 | 0 | C | T | 79.1% | 75.7 / 14.3 | 44 | intergenic (+156/+559) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 339,986 | 0 | G | A | 71.4% | 76.3 / 40.2 | 63 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 2,304,567 | 0 | C | T | 69.8% | 39.7 / 31.3 | 43 | intergenic (+174/+541) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 339,979 | 0 | G | A | 68.8% | 55.9 / 44.5 | 61 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 2,304,575 | 0 | G | A | 65.9% | 31.0 / 32.5 | 45 | intergenic (+182/+533) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 3,823,064 | 0 | G | A | 60.5% | 109.9 / 157.7 | 135 | G222E (GGG→GAG) | spoT | bifunctional (p)ppGpp synthase/hydrolase SpoT |
| * | NC_000913 | 808,080 | 0 | A | T | 59.4% | 102.5 / 197.5 | 124 | F393Y (TTT→TAT) | bioA | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| * | NC_000913 | 2,722,838 | 0 | G | T | 37.8% | 242.5 / 23.6 | 156 | E38* (GAG→TAG) | pssA | phosphatidylserine synthase |
| * | NC_000913 | 1,302,200 | 0 | C | T | 37.3% | 101.0 / 125.0 | 110 | A340V (GCC→GTC) | oppA | oligopeptide ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,351,463 | 0 | C | A | 36.5% | 122.5 / 18.8 | 115 | E100* (GAG→TAG) | ycjD | DUF559 domain‑containing protein YcjD |
| * | NC_000913 | 3,911,533 | 0 | C | A | 36.4% | 255.2 / 28.3 | 173 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 2,433,340 | 0 | G | T | 34.7% | 145.9 / 11.0 | 95 | S196Y (TCC→TAC) | accD | acetyl‑CoA carboxyltransferase subunit beta |
| * | NC_000913 | 12,152 | 0 | G | T | 34.4% | 200.2 / 31.1 | 154 | intergenic (‑366/‑11) | yaaI/dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
| * | NC_000913 | 2,855,852 | 0 | C | A | 34.4% | 142.8 / 12.8 | 96 | L505L (CTC→CTA) | fhlA | DNA‑binding transcriptional activator FhlA |
| * | NC_000913 | 847,955 | 0 | G | A | 33.1% | 230.0 / 85.8 | 186 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 147,802 | 0 | C | A | 32.2% | 180.2 / 15.1 | 121 | R279R (CGG→AGG) | rpnC | recombination‑promoting nuclease RpnC |
| * | NC_000913 | 2,047,219 | 0 | C | A | 31.9% | 256.9 / 11.3 | 138 | S761* (TCG→TAG) | yeeJ | inverse autotransporter adhesin |
| * | NC_000913 | 58,065 | 0 | C | A | 31.0% | 225.8 / 20.6 | 129 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 2,772,966 | 0 | G | T | 30.8% | 181.9 / 11.3 | 117 | intergenic (‑812/‑352) | yfjU/yfjW | putative arsenate reductase‑like protein YfjU/uncharacterized protein YfjW |
| * | NC_000913 | 1,812,509 | 0 | G | T | 29.7% | 369.2 / 29.4 | 195 | L208L (CTC→CTA) | ydjO | protein YdjO |
| Marginal new junction evidence (lowest skew 10 of 62 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1067753 = | 167 (1.380) | 39 (0.320) | 27/588 | 3.3 | 18.9% | intergenic (‑45/‑328) | wrbA/ymdF | NAD(P)H:quinone oxidoreductase/stress‑induced bacterial acidophilic repeat motifs‑containing protein YmdF |
| ? | NC_000913 | = 1470516 | NA (NA) | noncoding (1221/1221 nt) | IS30 | repeat region | |||||
| * | ? | NC_000913 | = 3648146 | 152 (1.260) | 13 (0.130) | 13/472 | 5.1 | 9.8% | intergenic (+2/‑148) | agrA/agrB | small RNA AgrA/small regulatory RNA AgrB |
| ? | NC_000913 | 3648378 = | 118 (1.220) | intergenic (+3/‑150) | agrB/arsR | small regulatory RNA AgrB/DNA‑binding transcriptional repressor ArsR | |||||
| * | ? | NC_000913 | = 4606166 | 93 (0.770) | 11 (0.130) | 10/410 | 5.3 | 15.2% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 58 (0.690) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 280111 | NA (NA) | 19 (0.160) | 13/588 | 6.3 | 10.2% | noncoding (181/181 nt) | IS30 | repeat region |
| ? | NC_000913 | 1067753 = | 167 (1.380) | intergenic (‑45/‑328) | wrbA/ymdF | NAD(P)H:quinone oxidoreductase/stress‑induced bacterial acidophilic repeat motifs‑containing protein YmdF | |||||
| * | ? | NC_000913 | = 271761 | NA (NA) | 19 (0.160) | 13/582 | 6.3 | 10.3% | noncoding (1221/1221 nt) | IS30 | repeat region |
| ? | NC_000913 | 1067753 = | 167 (1.380) | intergenic (‑45/‑328) | wrbA/ymdF | NAD(P)H:quinone oxidoreductase/stress‑induced bacterial acidophilic repeat motifs‑containing protein YmdF | |||||
| * | ? | NC_000913 | 1411899 = | 141 (1.170) | 11 (0.100) | 11/536 | 6.4 | 7.1% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 158 (1.440) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | = 1286906 | 93 (0.770) | 12 (0.110) | 11/548 | 6.6 | 13.1% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 73 (0.650) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 2818197 = | 53 (0.440) | 10 (0.110) | 7/430 | 6.7 | 15.2% | intergenic (‑62/+1) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | = 2818471 | 73 (0.830) | intergenic (‑197/+2) | argY/argV | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | NC_000913 | = 781446 | 86 (0.710) | 12 (0.140) | 7/432 | 6.7 | 16.8% | intergenic (+2/‑131) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 781655 = | 56 (0.630) | intergenic (+3/‑430) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | 308155 = | 111 (0.930) | 11 (0.090) | 11/584 | 6.9 | 9.0% | coding (1178/2526 nt) | ecpC | putative fimbrial usher protein EcpC |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||