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 48 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 699,722 | 0 | A | G | 58.4% | 31.3 / 85.1 | 77 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 57.9% | ‑4.9 / 86.5 | 76 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 43.1% | 95.0 / 83.9 | 51 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 42.9% | 27.6 / 59.2 | 56 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,634 | 0 | C | T | 39.8% | 65.9 / 94.3 | 94 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,705 | 0 | A | G | 39.7% | 48.1 / 66.3 | 63 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,988,894 | 0 | C | T | 37.2% | 42.0 / 47.8 | 51 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 37.2% | 43.5 / 46.4 | 51 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 1,544,489 | 0 | C | A | 34.8% | 26.0 / 16.9 | 23 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 5,988,889 | 0 | C | A | 34.0% | 59.8 / 39.3 | 50 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 1,544,492 | 0 | G | C | 32.0% | 33.0 / 19.3 | 25 | intergenic (+51/+63) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 4,530,026 | 0 | T | A | 30.8% | 27.5 / 14.8 | 26 | intergenic (+32/‑136) | PP_4018/topB | acetyltransferase/DNA topoisomerase III |
| * | NC_002947 | 1,544,504 | 0 | T | G | 29.6% | 41.4 / 18.0 | 27 | intergenic (+63/+51) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,494 | 0 | C | G | 29.2% | 31.3 / 16.2 | 24 | intergenic (+53/+61) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,499 | 0 | C | G | 29.2% | 35.3 / 15.2 | 24 | intergenic (+58/+56) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,501 | 0 | G | C | 29.2% | 32.3 / 15.9 | 24 | intergenic (+60/+54) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,464,196 | 0 | G | A | 29.0% | 38.4 / 17.7 | 32 | T474T (ACC→ACT) | algX | alginate biosynthesis protein AlgX |
| * | NC_002947 | 5,903,165 | 0 | A | C | 28.6% | 49.8 / 17.5 | 42 | intergenic (‑129/‑139) | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
| * | NC_002947 | 196,351 | 0 | C | G | 28.4% | 117.3 / 54.4 | 74 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,464,198 | 0 | T | A | 28.1% | 34.6 / 14.9 | 33 | T474S (ACC→TCC) | algX | alginate biosynthesis protein AlgX |
| Marginal new junction evidence (lowest skew 10 of 294 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5669426 | 58 (1.240) | 8 (0.190) | 8/254 | 3.9 | 13.4% | intergenic (+27/‑98) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase |
| ? | NC_002947 | = 5669447 | 51 (1.210) | intergenic (+48/‑77) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | NC_002947 | 611504 = | NA (NA) | 8 (0.180) | 8/268 | 4.1 | NA | coding (401/966 nt) | PP_0526 | transposase |
| ? | NC_002947 | 611533 = | NA (NA) | coding (430/966 nt) | PP_0526 | transposase | |||||
| * | ? | NC_002947 | 5549325 = | 51 (1.090) | 4 (0.130) +49 bp |
4/184 | 4.2 | 12.3% | intergenic (‑272/‑1) | rnr/PP_t46 | exoribonuclease R/tRNA‑Leu |
| ? | NC_002947 | 5549423 = | 36 (0.770) | intergenic (+11/‑78) | PP_t46/PP_t47 | tRNA‑Leu/tRNA‑Leu | |||||
| * | ? | NC_002947 | 1906682 = | 31 (0.660) | 7 (0.180) | 6/230 | 4.2 | 22.5% | intergenic (+22/+106) | nirD/PP_1707 | nitrite reductase/D‑isomer specific 2‑hydroxyacid dehydrogenase family protein |
| ? | NC_002947 | 1906776 = | 23 (0.600) | intergenic (+116/+12) | nirD/PP_1707 | nitrite reductase/D‑isomer specific 2‑hydroxyacid dehydrogenase family protein | |||||
| * | ? | NC_002947 | 5439307 = | 41 (0.880) | 8 (0.170) | 8/278 | 4.3 | 16.3% | coding (49/633 nt) | rluE | 23S rRNA pseudouridine(2457) synthase |
| ? | NC_002947 | 5439336 = | 42 (0.910) | coding (20/633 nt) | rluE | 23S rRNA pseudouridine(2457) synthase | |||||
| * | ? | NC_002947 | = 5201567 | 41 (0.880) | 8 (0.180) | 8/276 | 4.3 | 19.0% | intergenic (‑53/‑127) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201666 = | 28 (0.610) | intergenic (‑152/‑28) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 3603946 | 38 (0.810) | 7 (0.160) | 7/272 | 4.5 | 17.2% | coding (708/900 nt) | PP_3179 | LysR family transcriptional regulator |
| ? | NC_002947 | = 3603972 | 31 (0.690) | coding (682/900 nt) | PP_3179 | LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 2153339 | 41 (0.880) | 7 (0.160) | 7/266 | 4.5 | 15.4% | coding (382/990 nt) | PP_1908 | putative Peptidase |
| ? | NC_002947 | = 2153361 | 38 (0.860) | coding (404/990 nt) | PP_1908 | putative Peptidase | |||||
| * | ? | NC_002947 | 1419549 = | 22 (0.470) | 5 (0.130) | 5/224 | 4.5 | 28.2% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 1419637 = | 8 (0.220) | intergenic (‑126/+10) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5513242 = | 45 (0.960) | 5 (0.130) | 5/230 | 4.7 | 11.9% | intergenic (+20/‑134) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | 5513350 = | 37 (0.970) | intergenic (+128/‑26) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||