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 28 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 | 46.0% | 388.0 / 94.2 | 278 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 35.7% | 398.7 / 33.9 | 196 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 341,377 | 0 | T | G | 33.3% | 188.8 / 25.7 | 117 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 32.9% | 684.5 / inf | 511 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,527,368 | 0 | A | C | 29.9% | 508.4 / 69.1 | 231 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 3,938,887 | 0 | C | T | 28.6% | 392.4 / 116.4 | 199 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 3,903,791 | 0 | A | G | 28.4% | 485.4 / 72.5 | 222 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 800,675 | 0 | A | C | 27.3% | 621.2 / 30.1 | 260 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 3,182,861 | 0 | A | C | 27.1% | 273.8 / 21.7 | 118 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 257,137 | 0 | T | G | 26.7% | 367.7 / 13.7 | 172 | L496V (TTG→GTG) | betT | choline transporter of high affinity |
| * | AP012306 | 2,758,909 | 0 | T | G | 26.2% | 559.0 / 16.0 | 214 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 2,376,612 | 0 | T | G | 26.0% | 487.0 / 34.2 | 200 | V326G (GTA→GGA) | ygbN | predicted transporter |
| * | AP012306 | 202,417 | 0 | T | G | 25.3% | 739.5 / 23.8 | 297 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 935,054 | 0 | G | T | 25.0% | 255.4 / 30.5 | 88 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 1,226,557 | 0 | A | G | 24.8% | 358.9 / 56.7 | 157 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,066,323 | 0 | A | C | 24.7% | 633.4 / 16.6 | 235 | intergenic (‑92/+33) | ychM/prsA | predicted transporter/phosphoribosylpyrophosphate synthase |
| * | AP012306 | 2,558,071 | 0 | A | C | 24.7% | 561.6 / 28.8 | 228 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 1,854,851 | 0 | A | C | 24.4% | 673.4 / 48.6 | 258 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 1,128,412 | 0 | T | G | 23.5% | 743.2 / 29.2 | 276 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 3,590,367 | 0 | A | C | 23.4% | 693.0 / 40.3 | 267 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 180 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 644310 = | 328 (1.080) | 27 (0.090) +GAG |
13/292 | 17.6 | 8.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 305 (1.000) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | = 997497 | 266 (0.870) | 11 (0.040) | 11/268 | 17.7 | 4.4% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 244 (0.890) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 1092334 | 315 (1.040) | 10 (0.040) | 9/258 | 18.3 | 3.7% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 242 (0.920) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 644310 = | 328 (1.080) | 25 (0.080) +G |
11/296 | 18.6 | 7.4% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073542 | 301 (0.990) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | = 1092512 | 386 (1.270) | 10 (0.040) | 8/258 | 18.9 | 3.4% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 242 (0.920) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 236403 | 311 (1.020) | 7 (0.030) | 6/258 | 20.0 | 2.6% | intergenic (+80/‑96) | yafL/yafM | predicted lipoprotein and C40 family peptidase/conserved protein |
| ? | AP012306 | 237045 = | 252 (0.960) | intergenic (+49/‑2715) | yafM/dinB | conserved protein/DNA polymerase IV | |||||
| * | ? | AP012306 | = 2328525 | 370 (1.220) | 11 (0.040) | 7/292 | 20.4 | 2.8% | intergenic (‑130/+69) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | AP012306 | = 2328888 | 390 (1.310) | intergenic (‑79/+120) | argY/argV | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 6 (0.020) | 6/288 | 20.9 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 1811480 | 248 (0.820) | 5 (0.020) | 5/270 | 21.0 | 2.2% | coding (421/1011 nt) | mglC | methyl‑galactoside transporter subunit |
| ? | AP012306 | = 1811466 | 225 (0.820) | coding (435/1011 nt) | mglC | methyl‑galactoside transporter subunit | |||||
| * | ? | AP012306 | = 3014868 | 367 (1.210) | 5 (0.020) | 5/274 | 21.1 | 1.5% | coding (930/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| ? | AP012306 | = 3014856 | 341 (1.220) | coding (918/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding | |||||