mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 305,497 | A→G | V365V (GTT→GTC) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 305,693 | C→A | R300I (AGA→ATA) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 305,770 | T→C | L274L (TTA→TTG) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 305,914 | C→T | K226K (AAG→AAA) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 306,199 | T→A | P131P (CCA→CCT) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 306,367 | C→A | M75I (ATG→ATT) | LLNZ_01670 ← | Nisin biosynthesis two‑component system, sensor histidine kinase NisK |
| RA | 306,674 | C→T | E199E (GAG→GAA) | LLNZ_01675 ← | Nisin biosynthesis two‑component system, response regulator NisR |
| RA | 308,336 | C→G | G142R (GGT→CGT) | LLNZ_01685 ← | multidrug‑efflux transporter protein |
| MC JC | 308,346 | (AGC)3→2 | coding (412‑414/1080 nt) | LLNZ_01685 ← | multidrug‑efflux transporter protein |
| RA | 444,791 | (T)8→9 | intergenic (+275/‑718) | LLNZ_02320 → / → glmM | hypothetical protein/phosphoglucosamine mutase |
| RA | 637,425 | (A)7→6 | coding (297/1164 nt) | LLNZ_03315 ← | hypothetical protein |
| RA | 771,661 | A→G | I23V (ATC→GTC) | aroD → | 3‑dehydroquinate dehydratase |
| RA | 1,095,659 | (A)7→6 | intergenic (+76/‑149) | LLNZ_05830 → / → LLNZ_05835 | hypothetical protein/hypothetical protein |
| RA | 1,191,576 | C→T | Q309* (CAA→TAA) | LLNZ_06295 → | D‑alanine transfer protein DltD |
| RA | 1,224,391 | 2 bp→AG | intergenic (+244/+299) | LLNZ_06440 → / ← LLNZ_06445 | hypothetical protein/hypothetical protein |
| RA | 1,238,479 | C→A | D34E (GAC→GAA) | LLNZ_06550 → | hypothetical protein |
| RA | 1,319,382 | (A)7→6 | coding (34/348 nt) | LLNZ_06950 → | hypothetical protein |
| RA | 1,875,806 | +TT | coding (566/762 nt) | LLNZ_09765 ← | phosphate transporter ATP‑binding protein |
| RA | 1,973,400 | G→T | A183S (GCC→TCC) | LLNZ_10250 → | putative neutral endopeptidase O2 |
| RA | 2,183,875 | (A)5→4 | coding (399/1161 nt) | LLNZ_11440 ← | hypothetical protein |
| RA | 2,396,538 | T→C | D73G (GAC→GGC) | LLNZ_12635 ← | hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP002094 | 670605 | 672212–671033 | 429–1608 | 46 [45] | [45] 46 | LLNZ_03505–LLNZ_03520 | LLNZ_03505,LLNZ_03510,LLNZ_03515,LLNZ_03520 |
| * | * | ÷ | CP002094 | 673606–675687 | 676703–675714 | 28–3098 | 46 [44] | [45] 48 | LLNZ_03540–LLNZ_03555 | LLNZ_03540,LLNZ_03545,LLNZ_03550,LLNZ_03555 |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP002094 | 705776 = | NA (NA) | 109 (1.090) | 48/196 | 1.7 | NA | coding (127/261 nt) | LLNZ_03755 | IS981 transposase A |
| ? | CP002094 | = 797569 | NA (NA) | intergenic (+88/‑293) | LLNZ_04245/LLNZ_04250 | putative transposase helper protein for IS712H/terminase small subunit | |||||
| * | ? | CP002094 | 1041791 = | 5 (0.050) | 93 (0.940) | 77/194 | 0.1 | 95.0% | coding (124/570 nt) | LLNZ_05610 | hypothetical protein |
| ? | CP002094 | 1204449 = | NA (NA) | intergenic (+84/+53) | LLNZ_06340/LLNZ_06345 | transposase/transposase | |||||
| * | ? | CP002094 | = 1041795 | 1 (0.010) | 96 (0.970) | 65/194 | 0.5 | 99.0% | coding (128/570 nt) | LLNZ_05610 | hypothetical protein |
| ? | CP002094 | = 1205670 | NA (NA) | intergenic (‑57/‑15) | LLNZ_06350/LLNZ_06355 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP002094 | = 2135803 | NA (NA) | 57 (0.830) +30 bp |
30/136 | 2.0 | NA | noncoding (865/1556 nt) | LLNZ_r13403 | 16S ribosomal RNA |
| ? | CP002094 | 2135833 = | NA (NA) | noncoding (835/1556 nt) | LLNZ_r13403 | 16S ribosomal RNA | |||||
| * | ? | CP002094 | = 2482655 | 16 (0.160) | 74 (0.870) | 56/168 | 0.5 | 84.2% | coding (48/375 nt) | LLNZ_13030 | putative alkylphosphonate uptake protein |
| ? | CP002094 | 2493241 = | 14 (0.160) | intergenic (+476/+84) | LLNZ_13110/LLNZ_13115 | hypothetical protein/glyceraldehyde 3‑phosphate dehydrogenase | |||||