mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP012306 | 1,091,992 | 0 | T | G | 44.2% | 342.5 / 81.9 | 240 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 40.5% | 338.1 / 65.2 | 210 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 2,758,909 | 0 | T | G | 35.3% | 423.3 / 39.8 | 207 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,527,368 | 0 | A | C | 32.3% | 548.2 / 65.2 | 251 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 3,639,040 | 0 | T | G | 28.8% | 95.9 / 16.5 | 52 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | AP012306 | 341,377 | 0 | T | G | 28.4% | 209.2 / 20.7 | 116 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 3,282,076 | 0 | T | G | 28.0% | 427.3 / 22.2 | 218 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 644,417 | 0 | G | A | 28.0% | 1011.7 / inf | 572 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,938,887 | 0 | C | T | 27.7% | 541.1 / 155.9 | 264 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 2,680,345 | 0 | A | C | 26.8% | 435.9 / 30.8 | 198 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 800,675 | 0 | A | C | 26.0% | 640.7 / 34.1 | 266 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 202,417 | 0 | T | G | 25.4% | 521.9 / 30.5 | 244 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 935,054 | 0 | G | T | 25.0% | 241.7 / 36.8 | 88 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 1,226,557 | 0 | A | G | 24.3% | 338.9 / 61.2 | 152 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 3,716,932 | 0 | T | A | 24.1% | 564.1 / 128.7 | 228 | intergenic (‑348/‑45) | acs/nrfA | bifunctional acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| * | AP012306 | 3,903,791 | 0 | A | G | 24.0% | 540.3 / 67.2 | 229 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 1,128,412 | 0 | T | G | 23.6% | 633.1 / 38.2 | 255 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 2,558,071 | 0 | A | C | 23.1% | 544.5 / 24.9 | 225 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 524,297 | 0 | C | T | 22.8% | 348.6 / 40.3 | 145 | M1M (ATG→ATA) † | citD | citrate lyase, acyl carrier (gamma) subunit |
| * | AP012306 | 3,590,367 | 0 | A | C | 22.1% | 742.1 / 20.3 | 258 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 62 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 398 (1.270) | 21 (0.080) | 13/258 | 6.2 | 6.3% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 280 (1.030) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 9 (0.030) | 9/288 | 7.3 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 1092334 | 336 (1.070) | 10 (0.040) | 7/258 | 7.5 | 3.4% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 280 (1.030) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 3224037 | 345 (1.100) | 7 (0.020) | 7/286 | 7.8 | 2.1% | coding (837/933 nt) | rfaD | ADP‑L‑glycero‑D‑mannoheptose‑6‑epimerase, NAD(P)‑binding |
| ? | AP012306 | = 3224044 | 333 (1.110) | coding (844/933 nt) | rfaD | ADP‑L‑glycero‑D‑mannoheptose‑6‑epimerase, NAD(P)‑binding | |||||
| * | ? | AP012306 | = 2659620 | 253 (0.810) | 6 (0.020) | 6/274 | 7.9 | 2.6% | coding (1257/1482 nt) | tolC | transport channel |
| ? | AP012306 | = 2659608 | 219 (0.760) | coding (1245/1482 nt) | tolC | transport channel | |||||
| * | ? | AP012306 | 186025 = | 297 (0.950) | 5 (0.020) | 5/286 | 8.3 | 1.7% | coding (619/1353 nt) | yaeL | zinc metallopeptidase |
| ? | AP012306 | 186042 = | 282 (0.940) | coding (636/1353 nt) | yaeL | zinc metallopeptidase | |||||
| * | ? | AP012306 | 2883249 = | 276 (0.880) | 5 (0.020) | 5/290 | 8.4 | 1.9% | coding (365/3105 nt) | acrF | multidrug efflux system protein |
| ? | AP012306 | 2883275 = | 239 (0.780) | coding (391/3105 nt) | acrF | multidrug efflux system protein | |||||
| * | ? | AP012306 | 2766713 = | 360 (1.150) | 5 (0.020) | 5/288 | 8.4 | 1.4% | intergenic (‑45/‑20) | yraL/yraM | predicted methyltransferase/conserved protein |
| ? | AP012306 | 2766752 = | 362 (1.200) | coding (20/2037 nt) | yraM | conserved protein | |||||
| * | ? | AP012306 | = 3853073 | 171 (0.550) | 4 (0.010) | 4/282 | 8.6 | 2.4% | coding (272/687 nt) | ulaF | L‑ribulose 5‑phosphate 4‑epimerase |
| ? | AP012306 | = 3853093 | 166 (0.560) | coding (292/687 nt) | ulaF | L‑ribulose 5‑phosphate 4‑epimerase | |||||
| * | ? | AP012306 | = 2548832 | 281 (0.900) | 4 (0.010) | 4/282 | 8.6 | 1.5% | coding (862/981 nt) | ygfZ | predicted folate‑dependent regulatory protein |
| ? | AP012306 | = 2548881 | 248 (0.840) | coding (911/981 nt) | ygfZ | predicted folate‑dependent regulatory protein | |||||