mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 204,511 | C→T | 100% | intergenic (+111/‑73) | alaV → / → rrlH | tRNA‑Ala/23S ribosomal RNA |
| RA | 204,556 | A→G | 100% | intergenic (+156/‑28) | alaV → / → rrlH | tRNA‑Ala/23S ribosomal RNA |
| RA | 214,925 | A→C | 65.5% | D12A (GAT→GCT) | dnaQ → | DNA polymerase III epsilon subunit |
| RA | 214,931 | A→C | 62.6% | E14A (GAA→GCA) | dnaQ → | DNA polymerase III epsilon subunit |
| RA | 705,870 | A→G | 50.0% | intergenic (‑367/+128) | ymcC ← / ← serX | predicted outer membrane lipoprotein/tRNA‑Ser |
| RA | 1,036,505 | G→A | 100% | A632A (GCG→GCA) | rsxC → | fused predicted 4Fe‑4S ferredoxin‑type protein |
| RA | 1,356,166 | G→C | 5.0% | L154V (CTA→GTA) | yehA ← | predicted fimbrial‑like adhesin protein |
| RA | 1,644,441 | T→A | 6.8% | Q231H (CAA→CAT) | nlpB ← | lipoprotein |
| RA | 1,644,444 | T→G | 6.6% | V230V (GTA→GTC) | nlpB ← | lipoprotein |
| RA | 1,644,452 | T→A | 5.9% | M228L (ATG→TTG) | nlpB ← | lipoprotein |
| RA | 1,763,540 | A→G | 10.3% | noncoding (304/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,556 | T→C | 24.3% | noncoding (288/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,558 | G→C | 7.6% | noncoding (286/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,559 | G→T | 7.5% | noncoding (285/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,580 | G→T | 6.2% | noncoding (264/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,636 | A→G | 28.9% | noncoding (208/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,804,090 | G→A | 63.0% | G52G (GGG→GGA) | mprA → | DNA‑binding transcriptional regulator |
| RA | 1,892,019:1 | +GC | 100% | intergenic (‑437/+54) | gudP ← / ← ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| RA | 2,359,867 | G→A | 31.3% | noncoding (1228/2905 nt) | rrlA ← | 23S ribosomal RNA |
| RA | 2,359,876 | C→T | 28.0% | noncoding (1219/2905 nt) | rrlA ← | 23S ribosomal RNA |
| RA | 2,833,469 | T→C | 9.6% | T261T (ACT→ACC) | groL → | Cpn60 chaperonin GroEL, large subunit of GroESL |
| RA | 2,833,483 | C→A | 8.3% | T266N (ACC→AAC) | groL → | Cpn60 chaperonin GroEL, large subunit of GroESL |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | minE | 252009 | 252062 | 54 | 11 [9] | [10] 13 | malZ | maltodextrin glucosidase |
| * | * | ÷ | minE | 865543 | 865589 | 47 | 11 [10] | [7] 11 | yciQ | predicted inner membrane protein |
| * | * | ÷ | minE | 899423 | 899459 | 37 | 11 [9] | [10] 12 | pspD | peripheral inner membrane phage‑shock protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | minE | 202975 = | NA (NA) | 3 (0.070) | 3/94 | NT | NA | noncoding (380/1542 nt) | rrsH | 16S ribosomal RNA |
| ? | minE | 202996 = | NA (NA) | noncoding (401/1542 nt) | rrsH | 16S ribosomal RNA | |||||
| * | ? | minE | = 206681 | NA (NA) | 4 (0.090) | 3/92 | NT | NA | noncoding (2098/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | minE | = 206690 | NA (NA) | noncoding (2107/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | minE | = 215622 | 23 (0.470) | 23 (1.020) +27 bp |
15/46 | NT | 58.5% | coding (732/732 nt) | dnaQ | DNA polymerase III epsilon subunit |
| ? | minE | 2705182 = | 48 (0.980) | intergenic (+106/‑1) | damX/dam | hypothetical protein/DNA adenine methylase | |||||
| * | ? | minE | 436259 = | 43 (0.880) | 42 (0.930) | 27/92 | NT | 54.3% | intergenic (‑156/‑29) | ybfF/seqA | conserved hypothetical protein/regulatory protein for replication initiation |
| ? | minE | = 2706018 | 31 (0.690) | coding (836/837 nt) | dam | DNA adenine methylase | |||||
| * | ? | minE | = 436833 | 53 (1.080) | 79 (1.620) | 40/100 | NT | 61.0% | coding (546/546 nt) | seqA | regulatory protein for replication initiation |
| ? | minE | 1803907 = | 48 (0.980) | intergenic (+63/‑28) | ygaH/mprA | predicted inner membrane protein/DNA‑binding transcriptional regulator | |||||
| * | ? | minE | 1109701 = | 33 (0.680) | 3 (0.070) | 3/90 | NT | 9.7% | coding (616/1290 nt) | ydiS | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| ? | minE | 1109736 = | 26 (0.590) | coding (651/1290 nt) | ydiS | predicted oxidoreductase, FAD/NAD(P)‑binding domain | |||||
| * | ? | minE | = 1826496 | 63 (1.290) | 3 (0.080) | 4/78 | NT | 6.0% | intergenic (‑173/‑262) | hydN/mutS | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/methyl‑directed mismatch repair protein |
| ? | minE | = 1826503 | 45 (1.180) | intergenic (‑180/‑255) | hydN/mutS | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit/methyl‑directed mismatch repair protein | |||||
| * | ? | minE | 1966484 = | 55 (1.130) | 5 (0.110) | 3/92 | NT | 9.1% | intergenic (‑91/+154) | cmtA/tktA | predicted fused mannitol‑specific enzyme IIBC component of PTS/transketolase 1, thiamin‑binding |
| ? | minE | 1966508 = | 49 (1.090) | intergenic (‑115/+130) | cmtA/tktA | predicted fused mannitol‑specific enzyme IIBC component of PTS/transketolase 1, thiamin‑binding | |||||
| * | ? | minE | = 2540584 | 51 (1.040) | 5 (0.110) | 3/90 | NT | 8.1% | coding (75/699 nt) | rfaY | lipopolysaccharide core biosynthesis protein |
| ? | minE | = 2540601 | 68 (1.550) | coding (92/699 nt) | rfaY | lipopolysaccharide core biosynthesis protein | |||||