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 |
| JC | 385,760 | Δ3 bp | intergenic (‑592/+483) | is10/LGG_00377 | transposase IS5 family protein/hypothetical protein |
| 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 | 751,663 | T→C | intergenic (+96/‑163) | 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 | 1,873,058 | 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 |
| RA | 1,873,078 | Δ1 bp | coding (727/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,089 | G→A | A239V (GCC→GTC) | LGG_01843 | hypothetical protein |
| RA | 1,873,091 | 2 bp→CA | coding (713‑714/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,110 | 3 bp→TCC | coding (693‑695/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,122 | C→T | R228H (CGC→CAC) | LGG_01843 | hypothetical protein |
| RA | 1,873,131 | +A | coding (674/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,133 | 1 bp→GG | coding (672/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,146 | 2 bp→AG | coding (658‑659/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,149 | G→C | A219G (GCG→GGG) | LGG_01843 | hypothetical protein |
| RA | 1,873,152 | C→G | S218T (AGC→ACC) | LGG_01843 | hypothetical protein |
| RA | 1,873,180 | A→G | S209P (TCA→CCA) | LGG_01843 | hypothetical protein |
| RA | 1,873,245 | T→A | D187V (GAT→GTT) | LGG_01843 | hypothetical protein |
| RA | 1,873,252 | 3 bp→AT | coding (551‑553/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,272 | T→C | N178S (AAC→AGC) | LGG_01843 | hypothetical protein |
| RA | 1,873,274 | C→T | L177L (CTG→CTA) | LGG_01843 | hypothetical protein |
| RA | 1,873,277 | 3 bp→GGA | coding (526‑528/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,298 | 2 bp→TG | coding (506‑507/795 nt) | LGG_01843 | hypothetical protein |
| RA | 1,873,301 | A→G | R168R (CGT→CGC) | 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 | 2,160,010 | 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 |
| RA | 2,353,548 | G→A | S767F (TCC→TTC) | LGG_02282 | hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_013198 | 392220–393749 | 474458–472946 | 79198–82239 | 212 [204] | [202] 220 | is11–[is26] | 84 genes is11, LGG_00384, LGG_00385, LGG_00386, slyA, LGG_00388, LGG_00389, aroE, LGG_00391, LGG_00392, manR, LGG_00394, frwA1, frwB1, frwC1, tal, rpe, ulaA, ulaB, pts, is12, ulaC, tktN, tktC, scrK, lacR, frwA2, frwB2, frwC2, 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, LGG_00446, LGG_00447, LGG_00448, LGG_00449, ybjD, is16, is17, is18, is19, LGG_00455, pacL, is20, is21, napA, is22, is23, is24, eriC, is25, LGG_00465, [is26] |
| * | * | ÷ | NC_013198 | 2574281–2574343 | 2574585–2574418 | 76–305 | 216 [204] | [194] 206 | [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 | 751569 = | 630 (1.184) | 392 (0.737) | 93/170 | 0.7 | intergenic (+2/‑257) | napA/gph | Na/H antiporter/haloacid dehalogenase‑like family hydrolase |
| ? | NC_013198 | = 751695 | 378 (0.604) | intergenic (+128/‑131) | napA/gph | Na/H antiporter/haloacid dehalogenase‑like family hydrolase | ||||
| * | ? | NC_013198 | 1058951 = | 836 (1.363) | 464 (0.757) | 85/196 | 1.7 | coding (53/183 nt) | LGG_01046 | hypothetical protein |
| ? | NC_013198 | = 2898115 | 418 (0.668) | coding (225/237 nt) | LGG_02835 | hypothetical protein | ||||
| * | ? | NC_013198 | 1998770 = | 334 (0.556) | 1138 (1.894) | 109/192 | 0.6 | 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 | ||||