mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 278,744 | +A | intergenic (‑239/+75) | PP_0224 ← / ← sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| RA | 307,866 | +C | intergenic (+881/‑988) | hslO → / → PP_0254 | molecular chaperone HslO/hypothetical protein |
| RA | 336,125 | +T | coding (210/237 nt) | PP_0278 → | hypothetical protein |
| RA | 353,067 | A→G | intergenic (+34/+84) | hisF → / ← cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
| RA | 499,203 | A→G | intergenic (+47/‑249) | uhpA → / → PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| RA | 1,070,248 | +GA | intergenic (+48/+94) | aroP‑I → / ← PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| RA | 1,126,647 | +C | intergenic (‑101/+48) | tdcG‑II ← / ← gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| RA | 1,419,549 | +C | intergenic (‑38/+98) | PP_1242 ← / ← PP_1244 | hypothetical protein/hypothetical protein |
| RA | 1,499,480 | 2 bp→AC | intergenic (+57/‑106) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 1,499,508 | +C | intergenic (+85/‑79) | trpS → / → zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| RA | 1,932,640 | +C | intergenic (‑107/+43) | rluA ← / ← minE | bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
| RA | 2,328,228 | T→C | E34G (GAG→GGG) | PP_2046 ← | LysR family transcriptional regulator |
| RA | 2,958,523 | C→T | A428V (GCA→GTA) | PP_2589 → | aldehyde dehydrogenase family protein |
| RA | 3,845,705 | +G | intergenic (‑72/+26) | PP_3394 ← / ← PP_3395 | 3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator |
| RA | 3,951,159 | T→C | intergenic (‑123/+72) | PP_3486 ← / ← PP_3487 | cytochrome c/hypothetical protein |
| RA | 3,951,161 | A→T | intergenic (‑125/+70) | PP_3486 ← / ← PP_3487 | cytochrome c/hypothetical protein |
| RA | 4,586,030 | 2 bp→TC | intergenic (+113/+101) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,586,035 | +G | intergenic (+118/+97) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,586,057 | +C | intergenic (+140/+75) | PP_4061 → / ← PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| RA | 4,740,811 | (T)7→6 | intergenic (+48/+705) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,740,816 | T→G | intergenic (+53/+700) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,740,819 | 2 bp→CT | intergenic (+56/+696) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,228 | +C | intergenic (+465/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,232 | C→T | intergenic (+469/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,235 | C→T | intergenic (+472/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,238 | C→G | intergenic (+475/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,240 | 2 bp→CT | intergenic (+477/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,246 | Δ1 bp | intergenic (+483/+270) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,255 | C→T | intergenic (+492/+261) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,257 | A→C | intergenic (+494/+259) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,261 | A→C | intergenic (+498/+255) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,263 | A→C | intergenic (+500/+253) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,272 | A→G | intergenic (+509/+244) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,274 | A→C | intergenic (+511/+242) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,276 | G→C | intergenic (+513/+240) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,278 | C→T | intergenic (+515/+238) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,283 | +T | intergenic (+520/+233) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,289 | C→G | intergenic (+526/+227) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,292 | C→T | intergenic (+529/+224) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,294 | C→G | intergenic (+531/+222) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,296 | A→C | intergenic (+533/+220) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,741,298 | C→T | intergenic (+535/+218) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,886,909 | G→A | intergenic (‑225/‑33) | PP_4296 ← / → gcl | hypothetical protein/glyoxylate carboligase |
| JC | 4,980,585 | +GGC | intergenic (‑24/+44) | PP_4387 ← / ← flgE | hypothetical protein/flagellar hook protein FlgE |
| JC | 5,555,608 | +GCC | intergenic (‑84/+87) | PP_4887 ← / ← PP_4888 | hypothetical protein/methyl‑accepting chemotaxis transducer |
| RA | 5,674,751 | +G | intergenic (+113/+27) | rhlE‑II → / ← yceI | ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor |
| RA | 5,674,753 | G→C | intergenic (+115/+25) | rhlE‑II → / ← yceI | ATP‑dependent RNA helicase/polyisoprene‑binding acidic stress response factor |
| JC | 5,681,415 | +CGGG | intergenic (‑133/+71) | PP_4986 ← / ← PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| RA | 5,740,555 | C→T | S175N (AGC→AAC) | PP_5037 ← | lipocalin family lipoprotein |
| RA | 5,797,897 | +T | coding (3/4446 nt) | gltB ← | L‑glutamate synthase subunit alpha |
| RA | 6,013,885 | T→C | intergenic (+90/+20) | xpt → / ← PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 171335–172964 | 176330–175388 | 2425–4996 | 131 [128] | [126] 130 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176619–178394 | 181746–180818 | 2425–5128 | 129 [125] | [124] 129 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 528001–528618 | 529633–528948 | 331–1633 | 137 [126] | [124] 129 | PP_23SC | 23S ribosomal RNA |
| * | * | ÷ | NC_002947 | 699759–701706 | 702703–702036 | 331–2945 | 129 [122] | [127] 129 | [PP_23SD] | [PP_23SD] |
| * | * | ÷ | NC_002947 | 741540–742208 | 743320–742541 | 334–1781 | 130 [126] | [123] 129 | [PP_0635] | [PP_0635] |
| * | * | ÷ | NC_002947 | 744997–745904 | 746902–745927 | 24–1906 | 131 [128] | [128] 133 | [PP_0637]–PP_0638 | [PP_0637],PP_0638 |
| * | * | ÷ | NC_002947 | 1296537–1297184 | 1298478–1297462 | 279–1942 | 129 [126] | [128] 130 | PP_1133 | PP_1133 |
| * | * | ÷ | NC_002947 | 1327172–1328837 | 1330455–1329502 | 666–3284 | 129 [124] | [127] 129 | PP_23SE–[PP_5SE] | PP_23SE,[PP_5SE] |
| * | * | ÷ | NC_002947 | 1440048–1440699 | 1442008–1440977 | 279–1961 | 129 [128] | [128] 131 | PP_1260 | PP_1260 |
| * | * | ÷ | NC_002947 | 2551373–2552237 | 2553863–2552902 | 666–2491 | 129 [126] | [123] 129 | [PP_23SF]–[PP_5SF] | [PP_23SF],[PP_5SF] |
| * | * | ÷ | NC_002947 | 2937726–2938405 | 2939337–2938683 | 279–1612 | 129 [128] | [125] 129 | [PP_2570] | [PP_2570] |
| * | * | ÷ | NC_002947 | 3522882–3523451 | 3525141–3524433 | 983–2260 | 129 [128] | [127] 130 | PP_3113–[PP_3115] | PP_3113,PP_3114,[PP_3115] |
| * | * | ÷ | NC_002947 | 3826304–3827327 | 3828251–3827605 | 279–1948 | 129 [126] | [128] 129 | PP_3381 | PP_3381 |
| * | * | ÷ | NC_002947 | 3969343–3970008 | 3971584–3970920 | 913–2242 | 130 [127] | [127] 129 | PP_3499–[PP_3501] | PP_3499,PP_3500,[PP_3501] |
| * | * | ÷ | NC_002947 | 4073735–4074765 | 4075690–4075043 | 279–1956 | 129 [127] | [125] 130 | PP_3586 | PP_3586 |
| * | * | ÷ | NC_002947 | 4391592–4392373 | 4393380–4392706 | 334–1789 | 130 [128] | [127] 131 | PP_3868 | PP_3868 |
| * | * | ÷ | NC_002947 | 4486364–4487038 | 4488613–4487950 | 913–2250 | 129 [121] | [127] 129 | PP_3979–[PP_3981] | PP_3979,PP_3980,[PP_3981] |
| * | * | ÷ | NC_002947 | 4493391–4494095 | 4495652–4495077 | 983–2262 | 131 [127] | [128] 129 | [PP_3984]–PP_3986 | [PP_3984],PP_3985,PP_3986 |
| * | * | ÷ | NC_002947 | 4536272–4537237 | 4538172–4537260 | 24–1901 | 130 [128] | [125] 131 | PP_4024–[PP_4025] | PP_4024,[PP_4025] |
| * | * | ÷ | NC_002947 | 5033203–5033887 | 5035464–5034799 | 913–2262 | 129 [126] | [127] 131 | PP_4437–[PP_4439] | PP_4437,PP_4438,[PP_4439] |
| * | * | ÷ | NC_002947 | 5036169–5036797 | 5038404–5037707 | 911–2236 | 130 [128] | [126] 130 | PP_4441–[PP_4443] | PP_4441,PP_4442,[PP_4443] |
| * | * | ÷ | NC_002947 | 5222614–5223647 | 5224566–5223925 | 279–1953 | 133 [128] | [126] 131 | PP_4603 | PP_4603 |
| * | * | ÷ | NC_002947 | 5307643–5308404 | 5310700–5309069 | 666–3058 | 129 [123] | [126] 129 | PP_23SG | PP_23SG |
| * | * | ÷ | NC_002947 | 5401808–5402730 | 5403731–5402753 | 24–1924 | 130 [128] | [128] 131 | [PP_4745]–PP_4746 | [PP_4745],PP_4746 |
| * | * | ÷ | NC_002947 | 5453067–5453713 | 5454653–5453991 | 279–1587 | 129 [127] | [125] 130 | [PP_4791] | [PP_4791] |
| * | * | ÷ | NC_002947 | 6152984–6153676 | 6155222–6154586 | 911–2239 | 131 [128] | [128] 131 | [PP_5396]–PP_5398 | [PP_5396],PP_5397,PP_5398 |