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 |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 1,852,305 | G→C | R450P (CGC→CCC) | relA → | ATP:GTP 3'‑pyrophosphotransferase |
| JC | 4,635,455 | (TATAGCGCTGGCCGGCAAAGGCCAGAC)1→2 | coding (347/639 nt) | uvrY ← | BarA/UvrY two‑componenent system response regulator |
| RA | 4,741,298 | +T | intergenic (+489/+263) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,302 | A→G | intergenic (+493/+259) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,306 | Δ1 bp | intergenic (+497/+255) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 5,609,896 | G→A | R224C (CGT→TGT) | PP_4929 ← | LysR family transcriptional regulator |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171383–176275 | 176275 | 1–4893 | 5 [4] | [4] 5 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176657–181673 | 181673 | 1–5017 | 5 [4] | [4] 5 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 4808205 | 4808219 | 15 | 13 [0] | [4] 6 | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 86750 = | 31 (1.170) | 8 (0.340) | 6/242 | 2.1 | 22.4% | intergenic (‑33/+112) | PP_0075/PP_0076 | choline sulfate transporter/choline betaine‑binding protein |
| ? | NC_002947 | 86841 = | 28 (1.200) | intergenic (‑124/+21) | PP_0075/PP_0076 | choline sulfate transporter/choline betaine‑binding protein | |||||
| * | ? | NC_002947 | = 176399 | NA (NA) | 22 (0.860) +CGAAA |
11/264 | 1.3 | 34.7% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 43 (1.630) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | = 652785 | 17 (0.640) | 7 (0.310) | 6/234 | 2.0 | 49.1% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 743135 = | NA (NA) | 12 (0.480) | 7/260 | 2.0 | NA | coding (1233/1422 nt) | PP_0635 | group II intron‑encoding maturase |
| ? | NC_002947 | 1427338 = | NA (NA) | coding (1229/1422 nt) | PP_1250 | group II intron‑encoding maturase | |||||
| * | ? | NC_002947 | = 915078 | 21 (0.790) | 6 (0.270) | 6/228 | 1.9 | 26.4% | intergenic (+43/+105) | fruA/PP_0796 | PTS fructose transporter subunit IIBC/hypothetical protein |
| ? | NC_002947 | = 915135 | 16 (0.730) | intergenic (+100/+48) | fruA/PP_0796 | PTS fructose transporter subunit IIBC/hypothetical protein | |||||
| * | ? | NC_002947 | 1299238 = | 17 (0.640) | 4 (0.160) | 4/266 | 2.9 | 20.8% | coding (946/1608 nt) | PP_1134 | hypothetical protein |
| ? | NC_002947 | 1299261 = | 14 (0.550) | coding (923/1608 nt) | PP_1134 | hypothetical protein | |||||
| * | ? | NC_002947 | 1356014 = | 25 (0.950) | 6 (0.240) | 6/264 | 2.3 | 21.0% | intergenic (+275/‑117) | PP_1180/PP_1181 | hypothetical protein/two‑component system response regulator |
| ? | NC_002947 | 1356073 = | 21 (0.820) | intergenic (+334/‑58) | PP_1180/PP_1181 | hypothetical protein/two‑component system response regulator | |||||
| * | ? | NC_002947 | 1419553 = | 12 (0.450) | 3 (0.150) | 3/210 | 2.7 | 23.8% | intergenic (‑36/+101) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 1419647 = | 10 (0.490) | intergenic (‑130/+7) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1419584 | 12 (0.450) | 8 (0.400) | 6/210 | 1.7 | 45.5% | intergenic (‑67/+70) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419614 | 10 (0.490) | intergenic (‑97/+40) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1531788 = | 20 (0.760) | 5 (0.230) | 5/226 | 2.2 | 23.0% | coding (130/630 nt) | PP_1344 | hypothetical protein |
| ? | NC_002947 | 1531884 = | 17 (0.780) | coding (34/630 nt) | PP_1344 | hypothetical protein | |||||
| * | ? | NC_002947 | = 2048853 | 17 (0.640) | 6 (0.260) | 5/240 | 2.3 | 28.6% | intergenic (+49/+90) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein |
| ? | NC_002947 | = 2048910 | 15 (0.650) | intergenic (+106/+33) | PP_1821/PP_1822 | glutathione S‑transferase family protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2414792 = | 10 (0.380) | 4 (0.160) | 4/262 | 2.9 | 21.9% | intergenic (+291/‑54) | PP_2114/PP_2115 | transposase/hypothetical protein |
| ? | NC_002947 | = 4022333 | 19 (0.750) | coding (17/942 nt) | PP_3547 | NAD(P)‑binding oxidoreductase | |||||
| * | ? | NC_002947 | = 2793794 | 9 (0.340) | 7 (0.330) | 6/218 | 1.8 | 49.7% | intergenic (+60/+67) | PP_2445/PP_2446 | membrane protein/hypothetical protein |
| ? | NC_002947 | = 2793804 | 7 (0.330) | intergenic (+70/+57) | PP_2445/PP_2446 | membrane protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 2954698 | 16 (0.610) | 4 (0.180) | 4/226 | 2.5 | 20.4% | intergenic (‑158/‑123) | PP_2586/PP_2587 | putative amino acid transporter/LuxR family transcriptional regulator |
| ? | NC_002947 | = 2954716 | 18 (0.830) | intergenic (‑176/‑105) | PP_2586/PP_2587 | putative amino acid transporter/LuxR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 4533623 | 32 (1.210) | 8 (0.330) | 7/250 | 1.9 | 22.2% | intergenic (+21/‑153) | PP_4020/cpo | oxidoreductase/non‑heme chloroperoxidase |
| ? | NC_002947 | = 4533688 | 27 (1.120) | intergenic (+86/‑88) | PP_4020/cpo | oxidoreductase/non‑heme chloroperoxidase | |||||
| * | ? | NC_002947 | 4586063 = | 10 (0.380) | 3 (0.160) | 3/198 | 2.6 | 42.2% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 1 (0.050) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4586100 | 10 (0.380) | 8 (0.420) | 7/198 | 1.4 | 66.0% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 1 (0.050) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4647641 | 11 (0.420) | 4 (0.210) | 4/196 | 2.2 | 32.2% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647671 | 9 (0.480) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 4852633 | 16 (0.610) | 6 (0.240) | 6/256 | 2.2 | 27.3% | intergenic (‑259/+38) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator |
| ? | NC_002947 | = 4852645 | 17 (0.690) | intergenic (‑271/+26) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator | |||||
| * | ? | NC_002947 | 5513290 = | 20 (0.760) | 6 (0.280) | 6/222 | 1.9 | 24.9% | intergenic (+20/‑134) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | 5513398 = | 20 (0.930) | intergenic (+128/‑26) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 5690111 = | 21 (0.790) | 8 (0.320) | 6/262 | 2.2 | 28.5% | coding (288/402 nt) | pilG | pilus biosynthesis/twitching motility protein PilG |
| ? | NC_002947 | 5690143 = | 20 (0.790) | coding (256/402 nt) | pilG | pilus biosynthesis/twitching motility protein PilG | |||||
| * | ? | NC_002947 | = 5692618 | 37 (1.400) | 9 (0.370) | 6/252 | 2.2 | 20.7% | intergenic (+31/‑139) | PP_4994/PP_4995 | hypothetical protein/exopolysaccharide biosynthesis protein |
| ? | NC_002947 | = 5692680 | 35 (1.440) | intergenic (+93/‑77) | PP_4994/PP_4995 | hypothetical protein/exopolysaccharide biosynthesis protein | |||||
| * | ? | NC_002947 | 5786528 = | 20 (0.760) | 7 (0.320) | 7/226 | 1.7 | 31.5% | intergenic (+15/‑116) | PP_5068/trxC | hypothetical protein/thioredoxin |
| ? | NC_002947 | 5786613 = | 14 (0.640) | intergenic (+100/‑31) | PP_5068/trxC | hypothetical protein/thioredoxin | |||||
| * | ? | NC_002947 | 5839251 = | 14 (0.530) | 4 (0.160) | 4/262 | 2.9 | 24.0% | coding (565/993 nt) | yheT | putative hydrolase |
| ? | NC_002947 | 5839266 = | 12 (0.470) | coding (580/993 nt) | yheT | putative hydrolase | |||||
| * | ? | NC_002947 | = 5914240 | 16 (0.610) | 5 (0.240) | 5/218 | 2.1 | 25.8% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914280 | 16 (0.760) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 6000959 = | 34 (1.290) | 6 (0.290) | 5/214 | 2.1 | 23.7% | intergenic (+10/+99) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | 6001053 = | 12 (0.580) | intergenic (+104/+5) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||
| * | ? | NC_002947 | 6006595 = | 24 (0.910) | 10 (0.510) | 5/202 | 1.9 | 51.7% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 1 (0.050) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 6045763 = | 25 (0.950) | 8 (0.310) | 7/264 | 2.0 | 25.0% | coding (404/768 nt) | PP_5298 | glutamine amidotransferase |
| ? | NC_002947 | 6045795 = | 24 (0.940) | coding (372/768 nt) | PP_5298 | glutamine amidotransferase | |||||
| * | ? | NC_002947 | = 6060500 | 17 (0.640) | 6 (0.250) | 5/246 | 2.4 | 23.4% | intergenic (+80/+101) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | = 6060559 | 24 (1.010) | intergenic (+139/+42) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||