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 | 1,499,498 | 1 bp→CG | intergenic (+75/‑89) | 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 | 4,741,255 | 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 | C→G | intergenic (+497/+256) | 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 | 4,874,523 | G→A | Q4* (CAG→TAG) | 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 | 5,740,555 | C→T | S175N (AGC→AAC) | PP_5037 ← | lipocalin family lipoprotein |
| 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 | 171349–172964 | 176320–175409 | 2446–4972 | 85 [78] | [76] 79 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176631–178394 | 181728–180839 | 2446–5098 | 81 [78] | [78] 80 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 207507–208204 | 208931–208220 | 17–1425 | 79 [78] | [77] 80 | PP_0168 | putative surface adhesion protein |
| * | * | ÷ | NC_002947 | 215437–216139 | 216866–216155 | 17–1430 | 80 [78] | [77] 80 | PP_0168 | putative surface adhesion protein |
| * | * | ÷ | NC_002947 | 528011–528562 | 529623–528969 | 408–1613 | 81 [77] | [78] 80 | PP_23SC | 23S ribosomal RNA |
| * | * | ÷ | NC_002947 | 699762–701650 | 702685–702057 | 408–2924 | 81 [78] | [77] 80 | [PP_23SD] | [PP_23SD] |
| * | * | ÷ | NC_002947 | 741551–742235 | 743312–742542 | 308–1762 | 80 [77] | [78] 79 | [PP_0635] | [PP_0635] |
| * | * | ÷ | NC_002947 | 744997–746891 | 746891 | 1–1895 | 80 [77] | [76] 79 | [PP_0637]–PP_0638 | [PP_0637],PP_0638 |
| * | * | ÷ | NC_002947 | 1296559–1297293 | 1298478–1297518 | 226–1920 | 81 [76] | [77] 79 | PP_1133 | PP_1133 |
| * | * | ÷ | NC_002947 | 1327179–1328842 | 1330450–1329523 | 682–3272 | 80 [73] | [77] 81 | PP_23SE–[PP_5SE] | PP_23SE,[PP_5SE] |
| * | * | ÷ | NC_002947 | 1440062–1440808 | 1441993–1441033 | 226–1932 | 81 [76] | [78] 82 | PP_1260 | PP_1260 |
| * | * | ÷ | NC_002947 | 2551391–2552242 | 2553847–2552923 | 682–2457 | 79 [75] | [77] 82 | [PP_23SF]–[PP_5SF] | [PP_23SF],[PP_5SF] |
| * | * | ÷ | NC_002947 | 2937725–2938349 | 2939319–2938574 | 226–1595 | 80 [74] | [78] 79 | PP_2570 | PP_2570 |
| * | * | ÷ | NC_002947 | 3522897–3523519 | 3525128–3524440 | 922–2232 | 82 [78] | [75] 79 | PP_3113–[PP_3115] | PP_3113,PP_3114,[PP_3115] |
| * | * | ÷ | NC_002947 | 3826311–3827271 | 3828241–3827496 | 226–1931 | 82 [78] | [77] 79 | PP_3381 | PP_3381 |
| * | * | ÷ | NC_002947 | 3969348–3969956 | 3971565–3970966 | 1011–2218 | 80 [78] | [78] 79 | PP_3499–[PP_3501] | PP_3499,PP_3500,[PP_3501] |
| * | * | ÷ | NC_002947 | 4073743–4074709 | 4075677–4074934 | 226–1935 | 80 [77] | [77] 81 | PP_3586 | PP_3586 |
| * | * | ÷ | NC_002947 | 4391584–4392372 | 4393374–4392679 | 308–1791 | 81 [77] | [78] 80 | PP_3868 | PP_3868 |
| * | * | ÷ | NC_002947 | 4486367–4486986 | 4488616–4487996 | 1011–2250 | 79 [78] | [78] 79 | PP_3979–[PP_3981] | PP_3979,PP_3980,[PP_3981] |
| * | * | ÷ | NC_002947 | 4493405–4494088 | 4495650–4495009 | 922–2246 | 79 [78] | [76] 79 | [PP_3984]–PP_3986 | [PP_3984],PP_3985,PP_3986 |
| * | * | ÷ | NC_002947 | 4536265–4538172 | 4538172 | 1–1908 | 79 [74] | [78] 81 | PP_4024–[PP_4025] | PP_4024,[PP_4025] |
| * | * | ÷ | NC_002947 | 5033225–5033835 | 5035455–5034845 | 1011–2231 | 80 [78] | [78] 80 | PP_4437–[PP_4439] | PP_4437,PP_4438,[PP_4439] |
| * | * | ÷ | NC_002947 | 5036174–5036824 | 5038395–5037747 | 924–2222 | 79 [76] | [78] 79 | PP_4441–[PP_4443] | PP_4441,PP_4442,[PP_4443] |
| * | * | ÷ | NC_002947 | 5222623–5223591 | 5224563–5223816 | 226–1941 | 79 [78] | [77] 79 | PP_4603 | PP_4603 |
| * | * | ÷ | NC_002947 | 5307646–5308383 | 5310700–5309064 | 682–3055 | 80 [76] | [77] 82 | PP_23SG | PP_23SG |
| * | * | ÷ | NC_002947 | 5401816–5403727 | 5403727 | 1–1912 | 79 [78] | [77] 80 | [PP_4745]–PP_4746 | [PP_4745],PP_4746 |
| * | * | ÷ | NC_002947 | 5453088–5453822 | 5454644–5454047 | 226–1557 | 81 [76] | [78] 80 | [PP_4791] | [PP_4791] |
| * | * | ÷ | NC_002947 | 6152987–6153636 | 6155212–6154559 | 924–2226 | 79 [77] | [76] 79 | [PP_5396]–PP_5398 | [PP_5396],PP_5397,PP_5398 |