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 | ||
| * | NZ_CP025268 | 1,292,848 | 0 | A | T | 73.5% | 326.1 / 299.1 | 482 | noncoding (11/132 nt) | CXP41_RS06830 | RtT sRNA |
| * | NZ_CP025268 | 1,292,810 | 0 | G | A | 64.4% | 213.7 / inf | 624 | noncoding (49/132 nt) | CXP41_RS06830 | RtT sRNA |
| * | NZ_CP025268 | 1,293,000 | 0 | A | G | 59.3% | 167.0 / inf | 323 | noncoding (37/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,292,991 | 0 | C | T | 56.4% | 161.5 / inf | 336 | noncoding (46/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,292,982 | 0 | A | G | 45.5% | 107.6 / inf | 325 | noncoding (55/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 2,233,239 | 0 | T | A | 35.7% | 216.3 / 87.1 | 190 | intergenic (+139/+234) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 2,233,248 | 0 | G | C | 32.1% | 283.6 / 116.6 | 196 | intergenic (+148/+225) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 164,412 | 0 | A | C | 27.9% | 230.0 / 32.9 | 180 | intergenic (+47/‑149) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 2,233,225 | 0 | T | A | 26.7% | 280.1 / 57.9 | 195 | intergenic (+125/+248) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 164,444 | 0 | T | A | 25.0% | 268.8 / 31.6 | 123 | intergenic (+79/‑117) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 3,505,559 | 0 | T | A | 24.2% | 569.4 / 55.4 | 290 | intergenic (+90/+62) | phoB/yhfS | DNA‑binding transcriptional regulator FrlR/aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme |
| * | NZ_CP025268 | 164,432 | 0 | T | A | 23.8% | 312.4 / 11.8 | 135 | intergenic (+67/‑129) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 3,505,553 | 0 | T | A | 21.3% | 613.5 / 41.6 | 293 | intergenic (+84/+68) | phoB/yhfS | DNA‑binding transcriptional regulator FrlR/aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme |
| * | NZ_CP025268 | 623,647 | 0 | A | T | 21.1% | 656.2 / 53.9 | 325 | intergenic (‑88/‑287) | fepB/entC | Fe2+‑enterobactin ABC transporter substrate‑binding protein/isochorismate synthase EntC |
| * | NZ_CP025268 | 164,395 | 0 | A | T | 21.0% | 342.4 / 29.9 | 191 | intergenic (+30/‑166) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 2,233,226 | 0 | C | A | 20.9% | 306.5 / 20.4 | 187 | intergenic (+126/+247) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 2,233,285 | 0 | T | A | 20.9% | 402.0 / 23.2 | 202 | intergenic (+185/+188) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 623,653 | 0 | A | T | 20.8% | 662.5 / 38.7 | 331 | intergenic (‑94/‑281) | fepB/entC | Fe2+‑enterobactin ABC transporter substrate‑binding protein/isochorismate synthase EntC |
| * | NZ_CP025268 | 3,240,303 | 0 | A | T | 20.2% | 591.9 / 33.8 | 251 | intergenic (+73/‑326) | alx/sstT | TerC family membrane protein Alx/serine/threonine transporter SstT |
| Marginal new junction evidence (lowest skew 10 of 417 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 179 (0.380) +43 bp |
50/188 | 3.3 | 50.0% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 66606 | 250 (0.370) | intergenic (‑55/+60) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase | |||||
| * | ? | NZ_CP025268 | 695911 = | 0 (0.000) | 334 (0.540) +GAAGAAACAATC |
56/250 | 4.5 | 54.8% | intergenic (‑33/+2) | CXP41_RS03680/CXP41_RS03685 | tRNA‑Gln/tRNA‑Gln |
| ? | NZ_CP025268 | = 696182 | 604 (0.880) | intergenic (‑1/+379) | CXP41_RS03695/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 189 (0.290) +TTCAAC |
43/262 | 6.7 | 29.8% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2435047 | 662 (0.970) | intergenic (‑249/+10) | cvpA/dedD | colicin V production protein/cell division protein DedD | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 179 (0.270) +TTCAAC |
42/262 | 6.9 | 45.2% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 2308958 = | 183 (0.270) | intergenic (+530/+185) | eco/mqo | serine protease inhibitor ecotin/malate dehydrogenase (quinone) | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 179 (0.270) +TTCAAC |
42/262 | 6.9 | 47.1% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 2308732 = | 150 (0.220) | intergenic (+304/+411) | eco/mqo | serine protease inhibitor ecotin/malate dehydrogenase (quinone) | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 179 (0.270) +TTCAAC |
42/262 | 6.9 | 40.9% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 2308619 = | NA (NA) | intergenic (+191/+524) | eco/mqo | serine protease inhibitor ecotin/malate dehydrogenase (quinone) | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 179 (0.270) +TTCAAC |
42/262 | 6.9 | 29.4% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 2308506 = | 630 (0.920) | intergenic (+78/+637) | eco/mqo | serine protease inhibitor ecotin/malate dehydrogenase (quinone) | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 177 (0.270) +TTCAAC |
41/262 | 7.1 | 24.9% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 4029440 = | 845 (1.240) | intergenic (+290/+91) | fre/fadA | NAD(P)H‑flavin reductase/acetyl‑CoA C‑acyltransferase FadA | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 177 (0.270) +TTCAAC |
41/262 | 7.1 | 23.9% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 3044744 = | 910 (1.330) | intergenic (+147/+49) | ygfZ/yqfA | tRNA‑modifying protein YgfZ/hemolysin III family protein | |||||
| * | ? | NZ_CP025268 | 66565 = | 271 (0.400) | 177 (0.270) +TTCAAC |
41/262 | 7.1 | 26.8% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2351362 | 743 (1.090) | intergenic (+177/+23) | nrdA/CXP41_RS24490 | ribonucleoside‑diphosphate reductase subunit alpha/protein YoaM | |||||