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 (highest frequency 20 of 280 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,965,782 | 0 | T | G | 74.2% | 63.6 / 19.6 | 31 | E389D (GAA→GAC) | tar | methyl‑accepting chemotaxis protein II |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 73.9% | ‑3.4 / 11.8 | 23 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 1,276,249 | 0 | G | . | 73.3% | 22.6 / 13.3 | 15 | coding (930/3744 nt) | narG | nitrate reductase subunit alpha |
| * | NZ_CP009273 | 4,064,564 | 0 | A | G | 73.1% | 33.0 / 17.0 | 26 | Y185H (TAT→CAT) | yihS | sulfoquinovose isomerase |
| * | NZ_CP009273 | 1,903,061 | 0 | A | T | 72.7% | 37.0 / 14.4 | 22 | intergenic (‑38/‑121) | mgrB/yobH | PhoP/PhoQ regulator MgrB/YobH family protein |
| * | NZ_CP009273 | 2,283,871 | 0 | T | . | 70.6% | 17.8 / 18.7 | 17 | intergenic (‑347/‑108) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP |
| * | NZ_CP009273 | 2,753,169 | 0 | T | C | 70.6% | 16.6 / 11.1 | 19 | S276P (TCA→CCA) | yfjI | YfjI family protein |
| * | NZ_CP009273 | 4,073,163 | 0 | A | T | 69.8% | 84.0 / 46.7 | 53 | D26V (GAT→GTT) | BW25113_RS20185 | hypothetical protein |
| * | NZ_CP009273 | 1,503,965 | 0 | T | C | 69.2% | 28.0 / 20.5 | 26 | D67D (GAT→GAC) | hicB | type II toxin‑antitoxin system antitoxin HicB |
| * | NZ_CP009273 | 2,439,101 | 0 | T | C | 69.2% | 28.7 / 20.8 | 26 | K255E (AAG→GAG) | mepA | penicillin‑insensitive murein endopeptidase |
| * | NZ_CP009273 | 1,558,439 | 0 | A | G | 68.0% | 27.2 / 19.9 | 25 | Y518H (TAT→CAT) | dosP | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| * | NZ_CP009273 | 3,579,168 | 0 | T | C | 67.3% | 54.4 / 45.9 | 49 | E339G (GAA→GGA) | ggt | gamma‑glutamyltransferase |
| * | NZ_CP009273 | 539,975 | 0 | A | G | 66.7% | 23.1 / 22.6 | 27 | D258D (GAT→GAC) | allC | allantoate deiminase |
| * | NZ_CP009273 | 646,265 | 0 | T | G | 66.7% | ‑0.2 / 27.1 | 30 | T350P (ACC→CCC) | citC | [citrate (pro‑3S)‑lyase] ligase |
| * | NZ_CP009273 | 2,982,555 | 0 | T | C | 66.7% | 35.7 / 26.3 | 33 | F232S (TTC→TCC) | yqeI | transcriptional regulator |
| * | NZ_CP009273 | 4,084,653 | 0 | A | G | 66.7% | 14.3 / 18.6 | 32 | G358G (GGT→GGC) | frvB | PTS fructose‑like transporter subunit IIBC |
| * | NZ_CP009273 | 4,153,816 | 0 | T | C | 66.7% | 39.9 / 18.7 | 33 | S84P (TCA→CCA) | btuB | TonB‑dependent vitamin B12 receptor BtuB |
| * | NZ_CP009273 | 1,980,420 | 0 | A | G | 65.6% | 32.3 / 27.7 | 32 | G5G (GGA→GGG) | ftnB | non‑heme ferritin‑like protein |
| * | NZ_CP009273 | 1,906,007 | 0 | T | G | 65.2% | 8.1 / 15.1 | 23 | H276P (CAC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 2,526,050 | 0 | A | G | 64.9% | 36.0 / 33.9 | 37 | T95A (ACC→GCC) | cysK | cysteine synthase A |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 4049856 = | 39 (1.100) | 5 (0.160) | 5/148 | 2.1 | 14.4% | intergenic (‑157/+129) | glnL/glnA | nitrogen regulation protein NR(II)/glutamate‑‑ammonia ligase |
| ? | NZ_CP009273 | 4049890 = | 25 (0.800) | intergenic (‑191/+95) | glnL/glnA | nitrogen regulation protein NR(II)/glutamate‑‑ammonia ligase | |||||
| * | ? | NZ_CP009273 | 2248837 = | 32 (0.900) | 5 (0.140) | 5/168 | 2.4 | 13.5% | coding (43/699 nt) | yeiL | transcriptional regulator YeiL |
| ? | NZ_CP009273 | 3576788 = | NA (NA) | coding (391/417 nt) | BW25113_RS17825 | YrhA family protein | |||||
| * | ? | NZ_CP009273 | 1040657 = | 20 (0.570) | 4 (0.130) | 4/150 | 2.4 | 15.1% | coding (603/1140 nt) | gfcE | polysaccharide export protein |
| ? | NZ_CP009273 | 1040766 = | 27 (0.850) | coding (494/1140 nt) | gfcE | polysaccharide export protein | |||||
| * | ? | NZ_CP009273 | 442673 = | 25 (0.710) | 5 (0.160) | 4/146 | 2.4 | 18.3% | coding (489/891 nt) | cyoE | heme o synthase |
| ? | NZ_CP009273 | 442734 = | 23 (0.750) | coding (428/891 nt) | cyoE | heme o synthase | |||||
| * | ? | NZ_CP009273 | 3920778 = | 58 (1.640) | 3 (0.100) | 3/144 | 2.7 | 6.1% | coding (264/993 nt) | asnA | aspartate‑‑ammonia ligase |
| ? | NZ_CP009273 | 3920817 = | 42 (1.380) | coding (303/993 nt) | asnA | aspartate‑‑ammonia ligase | |||||
| * | ? | NZ_CP009273 | 215975 = | 42 (1.190) | 3 (0.100) | 3/146 | 2.7 | 8.6% | coding (107/708 nt) | tsaA | tRNA (N6‑threonylcarbamoyladenosine(37)‑N6)‑methyltransferase TrmO |
| ? | NZ_CP009273 | 216027 = | 27 (0.880) | coding (55/708 nt) | tsaA | tRNA (N6‑threonylcarbamoyladenosine(37)‑N6)‑methyltransferase TrmO | |||||
| * | ? | NZ_CP009273 | = 4532507 | 18 (0.510) | 3 (0.090) | 3/150 | 2.8 | 8.9% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 45 (1.420) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | 3757365 = | 13 (0.370) | 3 (0.090) | 3/152 | 2.8 | 12.3% | coding (1823/4134 nt) | rhsA | RHS element protein RhsA |
| ? | NZ_CP009273 | 3757417 = | 31 (0.970) | coding (1875/4134 nt) | rhsA | RHS element protein RhsA | |||||
| * | ? | NZ_CP009273 | = 2936959 | 39 (1.100) | 4 (0.120) | 3/152 | 2.8 | 11.4% | coding (264/1206 nt) | csdA | cysteine desulfurase CsdA |
| ? | NZ_CP009273 | = 2936998 | 27 (0.840) | coding (303/1206 nt) | csdA | cysteine desulfurase CsdA | |||||
| * | ? | NZ_CP009273 | = 1870380 | 28 (0.790) | 3 (0.090) | 3/150 | 2.8 | 10.7% | coding (451/1182 nt) | nimT | 2‑nitroimidazole transporter |
| ? | NZ_CP009273 | = 1870397 | 25 (0.790) | coding (468/1182 nt) | nimT | 2‑nitroimidazole transporter | |||||