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 | 1,297,123 | 0 | C | T | 70.8% | 241.2 / 130.7 | 148 | intergenic (+53/‑33) | oppA/oppB | oligopeptide transporter subunit/oligopeptide transporter subunit |
| * | CP009273 | 4,178,501 | 0 | G | C | 68.6% | 309.8 / 215.9 | 191 | R1075P (CGT→CCT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 2,170,734 | 0 | G | T | 44.3% | 48.6 / 92.1 | 149 | intergenic (‑51/+257) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 838,652 | 0 | T | G | 24.8% | 220.1 / 15.9 | 109 | F289V (TTT→GTT) | rlmF | 23S rRNA m(6)A1618 methyltransferase, SAM‑dependent |
| * | CP009273 | 104,041 | 0 | G | T | 24.5% | 192.8 / 29.3 | 98 | intergenic (+80/‑151) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| * | CP009273 | 4,586,638 | 0 | G | C | 23.6% | 270.8 / 17.6 | 113 | E278Q (GAA→CAA) | yjjN | L‑galactonate oxidoreductase |
| * | CP009273 | 2,170,746 | 0 | C | A | 23.6% | 314.3 / 21.4 | 178 | intergenic (‑63/+245) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase class I |
| * | CP009273 | 3,453,450 | 0 | A | C | 23.2% | 198.1 / 10.2 | 95 | K92T (AAA→ACA) | gspF | general secretory pathway component, cryptic |
| * | CP009273 | 357,031 | 0 | C | A | 22.8% | 272.0 / 11.0 | 127 | V181F (GTT→TTT) | lacA | thiogalactoside acetyltransferase |
| * | CP009273 | 2,998,305 | 0 | G | T | 22.6% | 196.3 / 14.0 | 115 | Q281K (CAA→AAA) | ygeV | putative sigma‑54‑interacting transcriptional activator |
| * | CP009273 | 104,042 | 0 | A | T | 20.2% | 269.1 / 22.2 | 97 | intergenic (+81/‑150) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 4532507 | 78 (0.490) | 23 (0.150) | 19/250 | 4.1 | 21.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 92 (0.620) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 79 (0.500) | 32 (0.220) | 17/250 | 4.6 | 27.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 92 (0.620) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 288987 | 159 (1.000) | 5 (0.030) | 4/264 | 10.0 | 3.6% | coding (643/699 nt) | yagL | CP4‑6 prophage; DNA‑binding protein |
| ? | CP009273 | = 1982653 | 111 (0.710) | coding (457/498 nt) | ftnA | ferritin iron storage protein (cytoplasmic) | |||||
| * | ? | CP009273 | 2761465 = | 199 (1.250) | 3 (0.020) | 3/266 | 10.7 | 1.6% | coding (397/864 nt) | yfjP | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| ? | CP009273 | 4015147 = | 166 (1.050) | coding (1562/1641 nt) | ubiB | regulator of octaprenylphenol hydroxylation, ubiquinone synthesis; regulator of 2'‑N‑acetyltransferase; putative ABC1 family protein kinase | |||||
| * | ? | CP009273 | 311603 = | NA (NA) | 3 (0.020) | 3/266 | 10.7 | NA | coding (306/867 nt) | insF1 | IS3 transposase B |
| ? | CP009273 | = 311756 | NA (NA) | coding (459/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | CP009273 | = 270001 | NA (NA) | 3 (0.020) | 3/266 | 10.7 | NA | noncoding (860/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 270011 = | NA (NA) | noncoding (850/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | 145155 = | 156 (0.980) | 3 (0.020) | 3/266 | 10.7 | 1.6% | coding (128/852 nt) | panC | pantothenate synthetase |
| ? | CP009273 | = 4505314 | 208 (1.310) | coding (1181/2325 nt) | fecA | ferric citrate outer membrane transporter | |||||
| * | ? | CP009273 | = 1610345 | 110 (0.690) | 3 (0.020) | 3/268 | 10.8 | 2.0% | coding (326/1116 nt) | yneK | uncharacterized protein |
| ? | CP009273 | = 4275164 | 184 (1.150) | intergenic (‑23/+177) | yjcH/acs | DUF485 family inner membrane protein/acetyl‑CoA synthetase | |||||