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 | 1,292,876 | 0 | C | T | 74.2% | 516.5 / 273.7 | 481 | intergenic (‑18/+29) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,293,000 | 0 | A | G | 61.3% | 193.6 / inf | 300 | noncoding (37/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,292,991 | 0 | C | T | 59.9% | 203.3 / 313.5 | 324 | noncoding (46/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,292,982 | 0 | A | G | 50.2% | 38.7 / inf | 336 | noncoding (55/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 2,233,239 | 0 | T | A | 31.2% | 287.2 / 61.4 | 187 | intergenic (+139/+234) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 1,292,887 | 0 | C | A | 25.2% | 493.7 / inf | 508 | intergenic (‑29/+18) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,292,891 | 0 | G | A | 24.7% | 554.3 / inf | 502 | intergenic (‑33/+14) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,292,883 | 0 | A | G | 24.6% | 590.2 / 294.2 | 502 | intergenic (‑25/+22) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 2,233,225 | 0 | T | A | 23.9% | 322.1 / 44.3 | 192 | intergenic (+125/+248) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 164,412 | 0 | A | C | 22.9% | 226.0 / 26.9 | 166 | intergenic (+47/‑149) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 2,233,248 | 0 | G | C | 22.8% | 418.1 / 68.7 | 197 | intergenic (+148/+225) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 2,181,292 | 0 | G | T | 22.6% | 266.5 / 33.0 | 177 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| * | NZ_CP025268 | 3,505,559 | 0 | T | A | 21.4% | 662.1 / 56.3 | 309 | intergenic (+90/+62) | phoB/yhfS | DNA‑binding transcriptional regulator FrlR/aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme |
| * | NZ_CP025268 | 164,393 | 0 | A | T | 21.0% | 341.4 / 10.7 | 170 | intergenic (+28/‑168) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 360,362 | 0 | C | A | 20.5% | 539.5 / 24.4 | 316 | E184* (GAA→TAA) | lacA | galactoside O‑acetyltransferase |
| Marginal new junction evidence (lowest skew 10 of 599 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP025268 | 66565 = | 289 (0.430) | 158 (0.340) +43 bp |
52/188 | 3.2 | 45.9% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 66606 | 253 (0.380) | intergenic (‑55/+60) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase | |||||
| * | ? | NZ_CP025268 | 1214891 = | 716 (1.060) | 160 (0.270) | 68/242 | 3.3 | 22.5% | coding (290/630 nt) | CXP41_RS06370 | protein StfP |
| ? | NZ_CP025268 | 1216719 = | 472 (0.790) | coding (40/540 nt) | CXP41_RS06385 | phage tail protein | |||||
| * | ? | NZ_CP025268 | 1292725 = | 604 (0.900) | 174 (0.310) | 64/232 | 3.4 | 37.2% | intergenic (+182/+2) | narI/CXP41_RS06830 | respiratory nitrate reductase subunit gamma/RtT sRNA |
| ? | NZ_CP025268 | = 1293258 | 76 (0.130) | intergenic (‑44/+3) | CXP41_RS06840/CXP41_RS06845 | RtT sRNA/tRNA‑Tyr | |||||
| * | ? | NZ_CP025268 | = 1214906 | 693 (1.030) | 103 (0.170) | 51/242 | 5.3 | 16.1% | coding (305/630 nt) | CXP41_RS06370 | protein StfP |
| ? | NZ_CP025268 | = 1216702 | 465 (0.780) | coding (57/540 nt) | CXP41_RS06385 | phage tail protein | |||||
| * | ? | NZ_CP025268 | 695911 = | 0 (0.000) | 284 (0.460) +GAAGAAACAATC |
51/250 | 5.5 | 49.7% | intergenic (‑33/+2) | CXP41_RS03680/CXP41_RS03685 | tRNA‑Gln/tRNA‑Gln |
| ? | NZ_CP025268 | = 696182 | 629 (0.930) | intergenic (‑1/+379) | CXP41_RS03695/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP025268 | 66565 = | 291 (0.430) | 155 (0.240) +TTCAAC |
40/262 | 7.7 | 26.2% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2435047 | 621 (0.920) | intergenic (‑249/+10) | cvpA/dedD | colicin V production protein/cell division protein DedD | |||||
| * | ? | NZ_CP025268 | 66565 = | 291 (0.430) | 148 (0.230) +TTCAAC |
38/262 | 8.1 | 21.8% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 4029440 = | 817 (1.210) | intergenic (+290/+91) | fre/fadA | NAD(P)H‑flavin reductase/acetyl‑CoA C‑acyltransferase FadA | |||||
| * | ? | NZ_CP025268 | 66565 = | 291 (0.430) | 148 (0.230) +TTCAAC |
38/262 | 8.1 | 22.4% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 3044744 = | 783 (1.160) | intergenic (+147/+49) | ygfZ/yqfA | tRNA‑modifying protein YgfZ/hemolysin III family protein | |||||
| * | ? | NZ_CP025268 | 66565 = | 291 (0.430) | 148 (0.230) +TTCAAC |
38/262 | 8.1 | 24.7% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2351362 | 652 (0.970) | intergenic (+177/+23) | nrdA/CXP41_RS24490 | ribonucleoside‑diphosphate reductase subunit alpha/protein YoaM | |||||
| * | ? | NZ_CP025268 | 66565 = | 291 (0.430) | 148 (0.230) +TTCAAC |
38/262 | 8.1 | 40.1% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 2308958 = | 171 (0.250) | intergenic (+530/+185) | eco/mqo | serine protease inhibitor ecotin/malate dehydrogenase (quinone) | |||||