mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.18
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 615,483 | T→C | L422P (CTG→CCG) | treB | PTS system beta‑glucoside‑specific transporter subunit IIABC |
| RA | 751,632 | 2 bp→GC | intergenic (+65/‑193) | napA/gph | Na/H antiporter/haloacid dehalogenase‑like family hydrolase |
| RA | 985,365 | A→G | I904I (ATT→ATC) | pacL | cation‑transporting ATPase |
| MC JC | 1,038,046 | Δ860 bp | [LGG_01023]–is36 | [LGG_01023], is35, is36 | |
| RA | 1,074,976 | G→A | E180K (GAA→AAA) | galU | UTP‑glucose‑1‑phosphate uridylyltransferase |
| RA | 1,118,872 | C→T | T67T (ACC→ACT) | LGG_01118 | hypothetical protein |
| RA | 1,873,058 | A→G | P249P (CCT→CCC) | LGG_01843 | hypothetical protein |
| RA | 1,873,063 | Δ1 bp | coding (742/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,071 | +T | coding (734/795 nt) | LGG_01843 | hypothetical protein |
| MC JC | 1,877,309 | Δ1,586 bp | LGG_01848 | LGG_01848 | |
| RA | 1,883,242 | C→A | intergenic (‑292/+93) | ABC‑SBP/LGG_01854 | ABC transporter substrate‑binding protein/hypothetical protein |
| RA | 2,060,386 | C→A | W87L (TGG→TTG) | gmk | guanylate kinase |
| RA | 2,150,514 | G→T | intergenic (‑99/+336) | LGG_02090/LGG_02091 | cytosine permease/hypothetical protein |
| RA | 2,160,010 | G→A | A459T (GCG→ACG) | LGG_02095 | type II restriction enzyme methylase subunit |
| RA | 2,163,622 | T→C | T636A (ACG→GCG) | LGG_02097 | type II restriction enzyme methyltransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_013198 | 414195–415278 | 449565–448478 | 33201–35371 | 54 [38] | [42] 58 | is13–[is15] | 34 genes is13, fba, gatY, pts, pts, manZ, tal, LGG_00419, yhfZ, LGG_00421, LGG_00422, LGG_00423, php, yhfS, yhfX, YHFW, ilvH, LGG_00429, cbiO, cbiQ, LGG_00432, menC, nagZ, is14, tnpR, LGG_00437, LGG_00438, LGG_00439, LGG_00440, srtC1, spaA, spaB, spaC, [is15] |
| * | * | ÷ | NC_013198 | 1873072–1873846 | 1873903–1873874 | 29–832 | 50 [44] | [40] 46 | [LGG_01843] | [LGG_01843] |
| * | * | ÷ | NC_013198 | 2574291–2574343 | 2574576–2574420 | 78–286 | 48 [44] | [44] 46 | [LGG_02511]–[LGG_02512] | [LGG_02511], [LGG_02512] |
| Unassigned new junction evidence... | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | annotation | gene | product | ||
| * | ? | NC_013198 | 1058951 = | 336 (0.657) | 112 (0.219) | 40/196 | 2.1 | coding (53/183 nt) | LGG_01046 | hypothetical protein |
| ? | NC_013198 | = 2898115 | 374 (0.717) | coding (225/237 nt) | LGG_02835 | hypothetical protein | ||||
| * | ? | NC_013198 | 1998770 = | NA (NA) | 4444 (8.869) | 109/192 | 0.3 | intergenic (+363/‑314) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein |
| ? | NC_013198 | = 1998907 | NA (NA) | intergenic (+500/‑177) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein | ||||
| * | ? | NC_013198 | 1998770 = | 336 (0.664) | 124 (0.245) | 43/194 | 1.9 | intergenic (+363/‑314) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein |
| ? | NC_013198 | = 1998901 | 1774 (3.399) | intergenic (+494/‑183) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein | ||||
| * | ? | NC_013198 | 1998770 = | 336 (0.671) | 116 (0.232) | 34/192 | 2.4 | intergenic (+363/‑314) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein |
| ? | NC_013198 | = 1998886 | NA (NA) | intergenic (+479/‑198) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein | ||||