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 | 74.2% | 392.6 / 253.0 | 436 | noncoding (11/132 nt) | CXP41_RS06830 | RtT sRNA |
| * | NZ_CP025268 | 1,292,876 | 0 | C | T | 74.1% | 536.8 / 270.0 | 470 | intergenic (‑18/+29) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,293,160 | 0 | G | A | 72.7% | 294.1 / 104.7 | 198 | noncoding (55/132 nt) | CXP41_RS06840 | RtT sRNA |
| * | NZ_CP025268 | 1,292,991 | 0 | C | T | 65.9% | 304.2 / 263.4 | 320 | noncoding (46/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,293,000 | 0 | A | G | 65.8% | 285.7 / 305.2 | 322 | noncoding (37/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 1,292,982 | 0 | A | G | 57.1% | 65.9 / inf | 323 | noncoding (55/132 nt) | CXP41_RS06835 | RtT sRNA |
| * | NZ_CP025268 | 4,621,385 | 0 | C | T | 49.7% | 251.2 / inf | 1740 | A414V (GCG→GTG) | deoA | thymidine phosphorylase |
| * | NZ_CP025268 | 164,412 | 0 | A | C | 29.1% | 301.4 / 35.6 | 233 | intergenic (+47/‑149) | hrpB/mrcB | ATP‑dependent helicase HrpB/bifunctional glycosyl transferase/transpeptidase |
| * | NZ_CP025268 | 2,233,239 | 0 | T | A | 29.0% | 313.4 / 43.4 | 179 | intergenic (+139/+234) | yohP/dusC | small membrane protein YohP/tRNA dihydrouridine(16) synthase DusC |
| * | NZ_CP025268 | 1,293,178 | 0 | A | G | 26.1% | 313.1 / 92.9 | 203 | noncoding (37/132 nt) | CXP41_RS06840 | RtT sRNA |
| * | NZ_CP025268 | 1,292,887 | 0 | C | A | 24.6% | 520.8 / 313.3 | 498 | intergenic (‑29/+18) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,292,883 | 0 | A | G | 24.3% | 621.1 / 280.3 | 495 | intergenic (‑25/+22) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,292,891 | 0 | G | A | 24.2% | 578.8 / inf | 495 | intergenic (‑33/+14) | CXP41_RS06830/CXP41_RS06835 | RtT sRNA/RtT sRNA |
| * | NZ_CP025268 | 1,293,169 | 0 | C | T | 24.1% | 299.6 / 116.8 | 200 | noncoding (46/132 nt) | CXP41_RS06840 | RtT sRNA |
| * | NZ_CP025268 | 2,181,292 | 0 | G | T | 24.1% | 276.2 / 43.5 | 187 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| * | NZ_CP025268 | 4,414,705 | 0 | T | G | 22.4% | 1097.4 / 84.9 | 492 | V131V (GTT→GTG) | yjfM | DUF1190 domain‑containing protein |
| Marginal new junction evidence (lowest skew 10 of 500 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP025268 | 1292725 = | 682 (1.020) | 190 (0.340) | 60/234 | 3.2 | 37.0% | intergenic (+182/+2) | narI/CXP41_RS06830 | respiratory nitrate reductase subunit gamma/RtT sRNA |
| ? | NZ_CP025268 | = 1293258 | 69 (0.120) | intergenic (‑44/+3) | CXP41_RS06840/CXP41_RS06845 | RtT sRNA/tRNA‑Tyr | |||||
| * | ? | NZ_CP025268 | 1214891 = | 740 (1.110) | 132 (0.220) | 62/244 | 3.2 | 19.5% | coding (290/630 nt) | CXP41_RS06370 | protein StfP |
| ? | NZ_CP025268 | 1216719 = | 436 (0.740) | coding (40/540 nt) | CXP41_RS06385 | phage tail protein | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 173 (0.350) +35 bp |
51/206 | 3.3 | 44.0% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 66614 | 277 (0.420) | intergenic (‑63/+52) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 183 (0.400) +43 bp |
46/190 | 3.4 | 47.2% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 66606 | 282 (0.420) | intergenic (‑55/+60) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase | |||||
| * | ? | NZ_CP025268 | = 1214906 | 700 (1.050) | 132 (0.220) | 59/244 | 3.5 | 20.1% | coding (305/630 nt) | CXP41_RS06370 | protein StfP |
| ? | NZ_CP025268 | = 1216702 | 428 (0.730) | coding (57/540 nt) | CXP41_RS06385 | phage tail protein | |||||
| * | ? | NZ_CP025268 | 695911 = | 0 (0.000) | 334 (0.550) +GAAGAAACAATC |
52/252 | 4.6 | 53.2% | intergenic (‑33/+2) | CXP41_RS03680/CXP41_RS03685 | tRNA‑Gln/tRNA‑Gln |
| ? | NZ_CP025268 | = 696182 | 644 (0.970) | intergenic (‑1/+379) | CXP41_RS03695/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 165 (0.260) +TTCAAC |
41/264 | 6.5 | 24.0% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2435047 | 778 (1.170) | intergenic (‑249/+10) | cvpA/dedD | colicin V production protein/cell division protein DedD | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 156 (0.240) +TTCAAC |
40/264 | 6.7 | 21.8% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 4029440 = | 860 (1.290) | intergenic (+290/+91) | fre/fadA | NAD(P)H‑flavin reductase/acetyl‑CoA C‑acyltransferase FadA | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 156 (0.240) +TTCAAC |
40/264 | 6.7 | 21.0% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | 3044744 = | 914 (1.370) | intergenic (+147/+49) | ygfZ/yqfA | tRNA‑modifying protein YgfZ/hemolysin III family protein | |||||
| * | ? | NZ_CP025268 | 66565 = | 312 (0.470) | 156 (0.240) +TTCAAC |
40/264 | 6.7 | 24.4% | intergenic (‑14/+101) | araD/araA | L‑ribulose‑5‑phosphate 4‑epimerase/L‑arabinose isomerase |
| ? | NZ_CP025268 | = 2351362 | 697 (1.050) | intergenic (+177/+23) | nrdA/CXP41_RS24490 | ribonucleoside‑diphosphate reductase subunit alpha/protein YoaM | |||||