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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 2,170,734 | 0 | G | T | 30.0% | 79.9 / 16.0 | 60 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 2,632,628 | 0 | C | G | 29.7% | 128.8 / 15.4 | 66 | E5D (GAG→GAC) | yfgM | putative anti‑RcsB factor |
| * | CP009273 | 4,197,504 | 0 | A | G | 26.2% | 137.1 / 58.6 | 84 | intergenic (‑44/‑571) | purH/rrsE | fused IMP cyclohydrolase/phosphoribosylaminoimidazolecarboxamide formyltransferase/16S ribosomal RNA of rrnE operon |
| * | CP009273 | 2,178,908 | 0 | T | G | 24.5% | 92.6 / 13.8 | 49 | intergenic (‑128/+95) | thiM/rcnR | hydoxyethylthiazole kinase/transcriptional repressor of rcnA |
| * | CP009273 | 4,197,519 | 0 | C | T | 23.9% | 173.5 / 57.1 | 92 | intergenic (‑59/‑556) | purH/rrsE | fused IMP cyclohydrolase/phosphoribosylaminoimidazolecarboxamide formyltransferase/16S ribosomal RNA of rrnE operon |
| * | CP009273 | 2,632,624 | 0 | C | G | 23.9% | 156.1 / 16.2 | 68 | E7Q (GAA→CAA) | yfgM | putative anti‑RcsB factor |
| * | CP009273 | 3,997,395 | 0 | G | C | 22.6% | 128.9 / 11.2 | 55 | F48L (TTC→TTG) | rarD | putative chloramphenical resistance permease |
| * | CP009273 | 2,021,639 | 0 | G | C | 22.4% | 141.8 / 40.0 | 67 | intergenic (‑141/+30) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | CP009273 | 2,021,640 | 0 | T | A | 22.4% | 132.2 / 37.5 | 67 | intergenic (‑142/+29) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | CP009273 | 2,021,641 | 0 | G | C | 22.4% | 145.0 / 39.2 | 67 | intergenic (‑143/+28) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | CP009273 | 1,440,614 | 1 | . | T | 21.1% | 150.8 / 52.1 | 57 | intergenic (+151/+21) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | CP009273 | 4,402,596 | 0 | T | G | 21.1% | 123.8 / 10.1 | 57 | V131V (GTT→GTG) | yjfM | DUF1190 family protein |
| * | CP009273 | 313,282 | 0 | T | C | 20.4% | 206.6 / 49.1 | 98 | intergenic (+4/+155) | ykgQ/rclC | pseudogene, putative dehydrogenase/reactive chlorine species (RCS) stress resistance inner membrane protein |
| * | CP009273 | 1,440,619 | 0 | A | . | 20.0% | 170.6 / 39.4 | 60 | intergenic (+156/+16) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | CP009273 | 2,279,621 | 0 | T | A | 20.0% | 179.9 / 38.5 | 86 | intergenic (+6/‑69) | yejM/proL | essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor/tRNA‑Pro |
| Marginal new junction evidence (lowest skew 10 of 287 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 220861 | NA (NA) | 33 (0.400) | 24/258 | 3.6 | NA | noncoding (604/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 220890 | NA (NA) | noncoding (633/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | 377428 = | NA (NA) | 26 (0.310) | 22/262 | 4.1 | NA | coding (299/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | 377513 = | NA (NA) | coding (384/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | = 2723626 | NA (NA) | 20 (0.240) | 17/260 | 5.2 | NA | noncoding (891/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | CP009273 | = 2723702 | NA (NA) | noncoding (815/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | = 1390859 | NA (NA) | 21 (0.250) | 17/262 | 5.2 | 19.5% | coding (527/1017 nt) | insH1 | IS5 transposase and trans‑activator |
| ? | CP009273 | 1422430 = | 90 (1.040) | noncoding (622/1196 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 270239 = | NA (NA) | 21 (0.250) | 17/262 | 5.2 | NA | noncoding (34/335 nt) | IS911 | repeat region |
| ? | CP009273 | 270302 = | NA (NA) | noncoding (97/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | = 220697 | NA (NA) | 21 (0.250) | 17/266 | 5.3 | NA | noncoding (440/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 220750 | NA (NA) | noncoding (493/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | 221072 = | NA (NA) | 18 (0.220) | 15/260 | 5.7 | 38.6% | noncoding (815/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | 221148 = | 30 (0.350) | noncoding (891/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | 270331 = | NA (NA) | 18 (0.220) | 14/254 | 5.8 | NA | noncoding (126/335 nt) | IS911 | repeat region |
| ? | CP009273 | 270374 = | NA (NA) | noncoding (169/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | 1039190 = | 69 (0.800) | 16 (0.190) | 13/264 | 6.3 | 20.9% | coding (477/2181 nt) | etk | tyrosine‑protein kinase, role in O‑antigen capsule formation |
| ? | CP009273 | 1039240 = | 54 (0.640) | coding (427/2181 nt) | etk | tyrosine‑protein kinase, role in O‑antigen capsule formation | |||||
| * | ? | CP009273 | = 3548805 | 107 (1.230) | 14 (0.170) | 12/252 | 6.4 | 12.4% | coding (2362/2706 nt) | malT | mal regulon transcriptional activator |
| ? | CP009273 | = 3548827 | 98 (1.220) | coding (2384/2706 nt) | malT | mal regulon transcriptional activator | |||||