mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,298 | 1 | . | T | 64.3% | 60.1 / 32.5 | 28 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 64.3% | 22.9 / 20.7 | 28 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 64.3% | 26.2 / 41.2 | 28 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 55.9% | 0.9 / 67.0 | 59 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 51.9% | ‑4.2 / 67.8 | 53 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 2,282,813 | 0 | T | G | 47.8% | 0.7 / 69.4 | 46 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 44.6% | 21.0 / 72.9 | 65 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 41.2% | 59.3 / 106.7 | 98 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 38.1% | 47.6 / 48.3 | 42 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 37.8% | 45.2 / 43.1 | 45 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 36.6% | 52.0 / 45.1 | 42 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,741,301 | 0 | A | C | 35.7% | 21.5 / 21.1 | 28 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 35.7% | 35.5 / 20.9 | 28 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,845,829 | 0 | T | G | 34.6% | 15.7 / 22.1 | 27 | S26R (AGT→AGG) | pfeS‑II | histidine kinase |
| * | NC_002947 | 3,198,945 | 0 | A | T | 34.5% | 31.7 / 23.3 | 30 | intergenic (‑246/+31) | ethA/PP_2806 | FAD‑containing monooxygenase EthA/TetR family transcriptional regulator |
| * | NC_002947 | 4,741,299 | 0 | C | T | 33.3% | 25.8 / 17.8 | 28 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 322,135 | 0 | G | A | 30.8% | 66.3 / 35.4 | 52 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 1,845,825 | 0 | T | C | 30.8% | 28.5 / 16.6 | 27 | L25P (CTC→CCC) | pfeS‑II | histidine kinase |
| * | NC_002947 | 5,655,687 | 0 | C | A | 30.6% | 79.4 / 33.8 | 49 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 3,198,949 | 0 | A | T | 29.6% | 36.2 / 17.1 | 29 | intergenic (‑250/+27) | ethA/PP_2806 | FAD‑containing monooxygenase EthA/TetR family transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 233 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 90359 = | 81 (1.950) | 14 (0.380) | 12/238 | 2.1 | 18.4% | intergenic (+34/+88) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| ? | NC_002947 | 90414 = | 53 (1.450) | intergenic (+89/+33) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 5537079 = | 66 (1.590) | 8 (0.240) | 9/216 | 2.5 | 13.9% | intergenic (+8/+95) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| ? | NC_002947 | 5537155 = | 46 (1.380) | intergenic (+84/+19) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin | |||||
| * | ? | NC_002947 | = 85065 | 62 (1.490) | 9 (0.250) | 9/236 | 2.8 | 14.0% | intergenic (+43/+87) | aroE/PP_0075 | shikimate 5‑dehydrogenase/choline sulfate transporter |
| ? | NC_002947 | = 85104 | 56 (1.540) | intergenic (+82/+48) | aroE/PP_0075 | shikimate 5‑dehydrogenase/choline sulfate transporter | |||||
| * | ? | NC_002947 | 445062 = | 33 (0.790) | 8 (0.240) | 7/216 | 3.0 | 18.7% | intergenic (+32/‑256) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| ? | NC_002947 | 445155 = | 43 (1.290) | intergenic (+125/‑163) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | = 5513315 | 68 (1.640) | 8 (0.240) | 7/218 | 3.1 | 12.4% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513371 | 58 (1.730) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 5382446 = | 39 (0.940) | 7 (0.230) | 6/200 | 3.1 | 21.6% | intergenic (+18/+115) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR |
| ? | NC_002947 | 5382544 = | 22 (0.710) | intergenic (+116/+17) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR | |||||
| * | ? | NC_002947 | 5162618 = | 40 (0.960) | 8 (0.240) | 7/218 | 3.1 | 24.9% | intergenic (+93/+108) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162702 = | 16 (0.480) | intergenic (+177/+24) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||
| * | ? | NC_002947 | = 4573275 | 52 (1.250) | 7 (0.210) | 7/220 | 3.1 | 14.0% | intergenic (+39/‑98) | PP_4054/glgX | hypothetical protein/glycogen debranching enzyme |
| ? | NC_002947 | = 4573292 | 44 (1.300) | intergenic (+56/‑81) | PP_4054/glgX | hypothetical protein/glycogen debranching enzyme | |||||
| * | ? | NC_002947 | 4030306 = | 55 (1.320) | 8 (0.210) | 8/244 | 3.1 | 13.4% | intergenic (+17/‑76) | PP_3553/PP_3554 | AMP‑binding domain‑containing protein/acyl‑CoA dehydrogenase family protein |
| ? | NC_002947 | 4030337 = | 54 (1.440) | intergenic (+48/‑45) | PP_3553/PP_3554 | AMP‑binding domain‑containing protein/acyl‑CoA dehydrogenase family protein | |||||
| * | ? | NC_002947 | = 182013 | 55 (1.320) | 21 (0.520) +TTTCG |
9/260 | 3.1 | 28.4% | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor |
| ? | NC_002947 | = 1330518 | NA (NA) | intergenic (+43/‑264) | PP_5SE/PP_1157 | 5S ribosomal RNA/acetolactate synthase | |||||