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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,348,705 | 0 | A | G | 59.2% | 4.5 / 50.7 | 49 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,499,497 | 1 | . | C | 58.3% | 10.2 / 14.5 | 12 | intergenic (+74/‑90) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,327,121 | 0 | C | T | 50.8% | 12.8 / 78.0 | 60 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 45.8% | 12.2 / 75.0 | 60 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,499,496 | 1 | . | G | 41.7% | ‑1.8 / 17.4 | 12 | intergenic (+73/‑91) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| * | NC_002947 | 1,544,489 | 0 | C | A | 41.7% | 0.1 / 10.6 | 12 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,501 | 0 | G | C | 38.5% | 6.5 / 10.8 | 14 | intergenic (+60/+54) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,494 | 0 | C | G | 35.7% | 11.2 / 10.5 | 14 | intergenic (+53/+61) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 1,544,499 | 0 | C | G | 35.7% | 11.3 / 10.9 | 14 | intergenic (+58/+56) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 196,351 | 0 | C | G | 34.2% | 49.5 / 34.4 | 41 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,504 | 0 | T | G | 33.3% | 1.5 / 11.2 | 15 | intergenic (+63/+51) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 196,390 | 0 | T | C | 31.2% | 33.9 / 21.1 | 33 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,634 | 0 | C | T | 28.6% | 65.6 / 30.4 | 49 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,590 | 0 | T | C | 28.6% | 44.6 / 21.8 | 36 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,406,237 | 0 | G | A | 27.6% | 44.7 / 11.4 | 29 | F288F (TTC→TTT) | puuP | putrescine permease |
| * | NC_002947 | 1,406,240 | 0 | G | A | 27.6% | 43.1 / 11.4 | 29 | I287I (ATC→ATT) | puuP | putrescine permease |
| * | NC_002947 | 196,306 | 0 | T | C | 25.6% | 58.0 / 20.1 | 39 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,572 | 0 | G | A | 25.6% | 59.7 / 20.0 | 42 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 25.0% | 61.8 / 24.1 | 40 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,406,249 | 0 | G | A | 25.0% | 45.2 / 10.6 | 28 | F284F (TTC→TTT) | puuP | putrescine permease |
| Marginal new junction evidence (lowest skew 10 of 115 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5988771 | 994 (31.890) | 226 (7.670) | 110/274 | 0.0 | 19.0% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988963 = | 993 (33.720) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5988757 | 966 (31.000) | 111 (3.770) | 79/274 | 0.0 | 10.4% | intergenic (+51/‑495) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988979 = | 996 (33.820) | intergenic (+273/‑273) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5989993 | 2243 (71.970) | 32 (1.080) | 18/276 | 0.7 | 1.5% | intergenic (+305/+44) | PP_5247/ycaC‑III | hypothetical protein/putative hydrolase |
| ? | NC_002947 | = 5990003 | 2197 (74.070) | intergenic (+315/+34) | PP_5247/ycaC‑III | hypothetical protein/putative hydrolase | |||||
| * | ? | NC_002947 | 5989987 = | 2244 (72.000) | 22 (0.740) | 12/276 | 1.4 | 1.0% | intergenic (+299/+50) | PP_5247/ycaC‑III | hypothetical protein/putative hydrolase |
| ? | NC_002947 | 5990011 = | 2197 (74.070) | intergenic (+323/+26) | PP_5247/ycaC‑III | hypothetical protein/putative hydrolase | |||||
| * | ? | NC_002947 | = 5989280 | 1798 (57.690) | 20 (0.710) | 11/262 | 1.5 | 1.1% | noncoding (29/87 nt) | PP_mr64 | C4 ncRNA |
| ? | NC_002947 | = 5989327 | 1883 (66.870) | noncoding (76/87 nt) coding (38/399 nt) |
PP_mr64 PP_5247 |
C4 ncRNA hypothetical protein |
|||||
| * | ? | NC_002947 | = 5987423 | 1598 (51.270) | 20 (0.680) | 11/272 | 1.6 | 1.3% | coding (505/1788 nt) | kefB‑III | glutathione‑regulated potassium/H+ antiporter |
| ? | NC_002947 | = 5987457 | 1595 (54.560) | coding (539/1788 nt) | kefB‑III | glutathione‑regulated potassium/H+ antiporter | |||||
| * | ? | NC_002947 | 5985206 = | 1856 (59.550) | 14 (0.470) | 10/278 | 1.8 | 0.79% | coding (390/405 nt) | PP_5244 | AraC family transcriptional regulator |
| ? | NC_002947 | 5985245 = | 1720 (57.570) | coding (351/405 nt) | PP_5244 | AraC family transcriptional regulator | |||||
| * | ? | NC_002947 | = 4808179 | 1 (0.030) | 13 (0.450) | 9/266 | 1.9 | 2.7% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 953 (33.340) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5988759 | 967 (31.030) | 10 (0.340) | 8/276 | 2.3 | 1.0% | intergenic (+53/‑493) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988951 = | 981 (33.070) | intergenic (+245/‑301) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 5987415 = | 1595 (51.180) | 19 (0.650) | 8/272 | 2.3 | 1.2% | coding (497/1788 nt) | kefB‑III | glutathione‑regulated potassium/H+ antiporter |
| ? | NC_002947 | 5987467 = | 1595 (54.560) | coding (549/1788 nt) | kefB‑III | glutathione‑regulated potassium/H+ antiporter | |||||