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 | 2,958,523 | C→T | A428V (GCA→GTA) | PP_2589 → | aldehyde dehydrogenase family protein |
| RA | 3,020,819 | G→T | A453S (GCC→TCC) | PP_2638 → | cellulose synthase operon protein C |
| JC | 3,586,302 | (GGTGTCGGCA)1→2 | coding (496/1329 nt) | benK → | benzoate MFS transporter |
| RA | 3,745,930 | G→A | E406K (GAA→AAA) | paoC → | aromatic aldehyde dehydrogenase molybdopterin‑binding subunit |
| 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 | 4,741,255 | 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 | 4,741,260 | 2 bp→GC | intergenic (+497/+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 |
| MC JC | 4,874,346 | Δ15 bp | coding (173‑187/756 nt) | PP_4283 ← | GntR family transcriptional regulator |
| 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 | 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 | 171339–172964 | 176335–175448 | 2485–4997 | 99 [96] | [95] 98 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176615–178394 | 181748–180878 | 2485–5134 | 102 [96] | [95] 100 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 207504–208192 | 210099–208220 | 29–2596 | 99 [97] | [97] 100 | PP_0168 | putative surface adhesion protein |
| * | * | ÷ | NC_002947 | 215434–216127 | 216874–216155 | 29–1441 | 102 [97] | [97] 98 | PP_0168 | putative surface adhesion protein |
| * | * | ÷ | NC_002947 | 527994–528650 | 529645–529008 | 359–1652 | 98 [95] | [97] 99 | PP_23SC | 23S ribosomal RNA |
| * | * | ÷ | NC_002947 | 699759–701738 | 702709–702096 | 359–2951 | 101 [96] | [96] 98 | [PP_23SD] | [PP_23SD] |
| * | * | ÷ | NC_002947 | 741520–742460 | 743329–742539 | 80–1810 | 98 [96] | [97] 99 | PP_0635 | PP_0635 |
| * | * | ÷ | NC_002947 | 744993–745904 | 746889–745906 | 3–1897 | 100 [97] | [96] 99 | [PP_0637]–PP_0638 | [PP_0637],PP_0638 |
| * | * | ÷ | NC_002947 | 1296537–1297312 | 1298490–1297420 | 109–1954 | 98 [97] | [97] 98 | PP_1133 | PP_1133 |
| * | * | ÷ | NC_002947 | 1327176–1328841 | 1330462–1329562 | 722–3287 | 99 [94] | [96] 100 | PP_23SE–[PP_5SE] | PP_23SE,[PP_5SE] |
| * | * | ÷ | NC_002947 | 1440051–1440827 | 1442009–1440935 | 109–1959 | 99 [97] | [95] 98 | PP_1260 | PP_1260 |
| * | * | ÷ | NC_002947 | 2551382–2552241 | 2553855–2552962 | 722–2474 | 98 [96] | [96] 98 | [PP_23SF]–[PP_5SF] | [PP_23SF],[PP_5SF] |
| * | * | ÷ | NC_002947 | 2937717–2938447 | 2939331–2938555 | 109–1615 | 99 [96] | [97] 99 | PP_2570 | PP_2570 |
| * | * | ÷ | NC_002947 | 3522874–3523599 | 3525143–3524483 | 885–2270 | 100 [97] | [97] 98 | PP_3113–[PP_3115] | PP_3113,PP_3114,[PP_3115] |
| * | * | ÷ | NC_002947 | 3826310–3827369 | 3828246–3827477 | 109–1937 | 98 [93] | [95] 98 | PP_3381 | PP_3381 |
| * | * | ÷ | NC_002947 | 3969326–3969949 | 3971565–3970889 | 941–2240 | 98 [97] | [96] 102 | PP_3499–[PP_3501] | PP_3499,PP_3500,[PP_3501] |
| * | * | ÷ | NC_002947 | 4073760–4074807 | 4075666–4074915 | 109–1907 | 99 [97] | [96] 99 | PP_3586 | PP_3586 |
| * | * | ÷ | NC_002947 | 4391604–4392375 | 4393370–4392454 | 80–1767 | 99 [97] | [96] 98 | [PP_3868] | [PP_3868] |
| * | * | ÷ | NC_002947 | 4486384–4486979 | 4488608–4487919 | 941–2225 | 98 [95] | [96] 98 | PP_3979–[PP_3981] | PP_3979,PP_3980,[PP_3981] |
| * | * | ÷ | NC_002947 | 4493388–4494045 | 4495643–4494929 | 885–2256 | 98 [95] | [97] 98 | [PP_3984]–PP_3986 | [PP_3984],PP_3985,PP_3986 |
| * | * | ÷ | NC_002947 | 4536270–4537258 | 4538168–4537260 | 3–1899 | 98 [96] | [97] 100 | PP_4024–[PP_4025] | PP_4024,[PP_4025] |
| * | * | ÷ | NC_002947 | 5033203–5033828 | 5035464–5034768 | 941–2262 | 98 [97] | [96] 100 | PP_4437–[PP_4439] | PP_4437,PP_4438,[PP_4439] |
| * | * | ÷ | NC_002947 | 5036160–5036869 | 5038403–5037714 | 846–2244 | 99 [95] | [97] 99 | PP_4441–[PP_4443] | PP_4441,PP_4442,[PP_4443] |
| * | * | ÷ | NC_002947 | 5222617–5223689 | 5224561–5223797 | 109–1945 | 100 [97] | [94] 98 | PP_4603 | PP_4603 |
| * | * | ÷ | NC_002947 | 5307646–5308344 | 5310708–5309065 | 722–3063 | 98 [96] | [96] 100 | PP_23SG | PP_23SG |
| * | * | ÷ | NC_002947 | 5401793–5402730 | 5403734–5402732 | 3–1942 | 98 [95] | [96] 99 | [PP_4745]–PP_4746 | [PP_4745],PP_4746 |
| * | * | ÷ | NC_002947 | 5453076–5453841 | 5454654–5453949 | 109–1579 | 102 [97] | [96] 101 | [PP_4791] | [PP_4791] |
| * | * | ÷ | NC_002947 | 6152988–6153669 | 6155212–6154514 | 846–2225 | 98 [95] | [97] 98 | [PP_5396]–PP_5398 | [PP_5396],PP_5397,PP_5398 |