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 31 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 | 38.8% | 391.7 / 67.2 | 245 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 32.7% | 473.6 / 38.5 | 220 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,903,791 | 0 | A | G | 30.4% | 477.0 / 85.5 | 241 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 1,226,557 | 0 | A | G | 28.5% | 321.3 / 80.0 | 165 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 644,417 | 0 | G | A | 28.4% | 911.8 / inf | 538 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,128,412 | 0 | T | G | 28.4% | 710.6 / 57.9 | 299 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 341,377 | 0 | T | G | 26.8% | 208.3 / 12.4 | 113 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 1,854,851 | 0 | A | C | 26.3% | 492.9 / 55.0 | 205 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 3,938,887 | 0 | C | T | 25.7% | 576.9 / 145.3 | 265 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 3,527,368 | 0 | A | C | 25.3% | 570.4 / 42.4 | 233 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 935,054 | 0 | G | T | 25.0% | 213.7 / 44.3 | 80 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 800,675 | 0 | A | C | 24.0% | 546.0 / 25.8 | 221 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 257,137 | 0 | T | G | 23.9% | 442.2 / 11.0 | 201 | L496V (TTG→GTG) | betT | choline transporter of high affinity |
| * | AP012306 | 3,282,076 | 0 | T | G | 23.4% | 586.4 / 20.1 | 257 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 406,677 | 0 | A | G | 23.1% | 431.6 / 23.7 | 173 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 202,417 | 0 | T | G | 22.9% | 526.4 / 11.6 | 216 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 2,758,909 | 0 | T | G | 22.8% | 604.9 / 15.8 | 232 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 2,560,243 | 0 | T | G | 22.8% | 383.0 / 21.6 | 167 | N419T (AAC→ACC) | pepP | proline aminopeptidase P II |
| * | AP012306 | 3,182,861 | 0 | A | C | 22.7% | 277.7 / 14.9 | 110 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 3,590,367 | 0 | A | C | 22.1% | 749.5 / 20.8 | 263 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| Marginal new junction evidence (lowest skew 10 of 229 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 215364 | NA (NA) | 12 (0.040) | 12/288 | 9.9 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 997497 | 317 (1.060) | 11 (0.040) | 10/268 | 10.2 | 4.0% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 246 (0.920) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 3317647 | 504 (1.690) | 10 (0.030) | 9/290 | 10.8 | 2.0% | intergenic (+242/‑1) | trmE/tnaC | GTPase/tryptophanase leader peptide |
| ? | AP012306 | = 3317678 | 477 (1.640) | coding (31/75 nt) | tnaC | tryptophanase leader peptide | |||||
| * | ? | AP012306 | = 1092512 | 311 (1.040) | 13 (0.050) | 7/258 | 11.0 | 4.7% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 257 (1.000) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 228777 = | 311 (1.040) | 8 (0.030) | 8/278 | 11.0 | 2.7% | coding (275/771 nt) | yafV | predicted C‑N hydrolase family amidase, NAD(P)‑binding |
| ? | AP012306 | 228787 = | 295 (1.060) | coding (265/771 nt) | yafV | predicted C‑N hydrolase family amidase, NAD(P)‑binding | |||||
| * | ? | AP012306 | 3671448 = | 427 (1.430) | 8 (0.030) | 8/290 | 11.1 | 1.8% | coding (20/1476 nt) | xylE | D‑xylose transporter |
| ? | AP012306 | 3671470 = | 448 (1.540) | intergenic (‑3/+369) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | AP012306 | = 1220777 | 323 (1.080) | 7 (0.030) | 7/270 | 11.2 | 2.3% | coding (1435/1962 nt) | ydcP | predicted peptidase |
| ? | AP012306 | = 1220763 | 299 (1.110) | coding (1421/1962 nt) | ydcP | predicted peptidase | |||||
| * | ? | AP012306 | = 955136 | 187 (0.630) | 9 (0.030) | 8/292 | 11.2 | 4.7% | intergenic (+1265/‑1406) | mdoG/yceK | glucan biosynthesis protein, periplasmic/predicted lipoprotein |
| ? | AP012306 | = 955148 | 182 (0.620) | intergenic (+1277/‑1394) | mdoG/yceK | glucan biosynthesis protein, periplasmic/predicted lipoprotein | |||||
| * | ? | AP012306 | 259466 = | 387 (1.300) | 7 (0.030) | 7/274 | 11.2 | 1.9% | coding (907/1089 nt) | yahA | predicted DNA‑binding transcriptional regulator |
| ? | AP012306 | 259478 = | 352 (1.280) | coding (919/1089 nt) | yahA | predicted DNA‑binding transcriptional regulator | |||||
| * | ? | AP012306 | = 1452066 | 377 (1.260) | 7 (0.020) | 7/286 | 11.4 | 1.9% | intergenic (+297/‑132) | ydiK/ydiL | predicted inner membrane protein/conserved protein |
| ? | AP012306 | = 1452103 | 365 (1.270) | intergenic (+334/‑95) | ydiK/ydiL | predicted inner membrane protein/conserved protein | |||||