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 | 40,322 | C→T | 5.8% | P81L (CCG→CTG) | fixA → | predicted electron transfer flavoprotein subunit, ETFP adenine nucleotide‑binding domain |
| RA | 89,548 | A→G | 13.6% | E276G (GAA→GGA) | ftsA → | ATP‑binding cell division protein involved in recruitment of FtsK to Z ring |
| 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 | 55.5% | D12A (GAT→GCT) | dnaQ → | DNA polymerase III epsilon subunit |
| RA | 214,931 | A→C | 59.3% | E14A (GAA→GCA) | dnaQ → | DNA polymerase III epsilon subunit |
| RA | 317,968 | C→T | 13.7% | T988T (ACC→ACT) | kefA → | fused mechanosensitive channel proteins |
| RA | 323,651 | C→T | 7.0% | I21I (ATC→ATT) | htpG → | molecular chaperone HSP90 family |
| RA | 323,666 | C→G | 7.4% | S26S (TCC→TCG) | htpG → | molecular chaperone HSP90 family |
| RA | 323,669 | T→C | 7.0% | N27N (AAT→AAC) | htpG → | molecular chaperone HSP90 family |
| RA | 323,672 | A→G | 7.2% | K28K (AAA→AAG) | htpG → | molecular chaperone HSP90 family |
| RA | 323,684 | G→C | 7.7% | L32L (CTG→CTC) | htpG → | molecular chaperone HSP90 family |
| RA | 323,687 | T→C | 7.7% | R33R (CGT→CGC) | htpG → | molecular chaperone HSP90 family |
| RA | 323,690 | G→A | 7.9% | E34E (GAG→GAA) | htpG → | molecular chaperone HSP90 family |
| RA | 323,693 | T→G | 8.3% | L35L (CTT→CTG) | htpG → | molecular chaperone HSP90 family |
| RA | 432,031:1 | +T | 6.7% | coding (397/1407 nt) | ybfM → | predicted outer membrane porin |
| RA | 894,873 | C→T | 5.5% | E398K (GAA→AAA) | sapA ← | predicted antimicrobial peptide transporter subunit |
| RA | 936,986 | G→A | 7.0% | G182G (GGG→GGA) | fdnI → | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible |
| RA | 937,123 | C→T | 9.0% | intergenic (+29/+378) | fdnI → / ← yddM | formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/predicted DNA‑binding transcriptional regulator |
| RA | 974,093 | A→G | 7.4% | T290A (ACG→GCG) | lsrB → | AI2 transporter |
| RA | 988,129 | A→G | 11.1% | S790S (TCA→TCG) | ynfE → | oxidoreductase subunit |
| RA | 988,133 | C→G | 11.1% | L792V (CTG→GTG) | ynfE → | oxidoreductase subunit |
| RA | 988,137 | C→T | 10.0% | A793V (GCG→GTG) | ynfE → | oxidoreductase subunit |
| RA | 1,008,960 | G→A | 11.3% | L98L (CTG→CTA) | folM → | dihydrofolate reductase isozyme |
| RA | 1,036,505 | G→A | 100% | A632A (GCG→GCA) | rsxC → | fused predicted 4Fe‑4S ferredoxin‑type protein |
| RA | 1,141,208:1 | +T | 6.8% | coding (168/264 nt) | cedA ← | cell division modulator |
| RA | 1,213,226 | A→G | 10.0% | *264R (TGA→CGA) | kdgR ← | predicted DNA‑binding transcriptional regulator |
| RA | 1,269,969 | G→A | 5.5% | A74T (GCA→ACA) | yedP → | conserved hypothetical protein |
| RA | 1,440,761 | C→G | 9.2% | intergenic (‑460/‑279) | ompC ← / → rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| RA | 1,440,764 | C→G | 8.8% | intergenic (‑463/‑276) | ompC ← / → rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| RA | 1,477,381 | A→G | 9.2% | E48G (GAA→GGA) | yfaH → | conserved hypothetical protein |
| RA | 1,642,784 | T→A | 10.0% | P74P (CCA→CCT) | ypfJ ← | conserved hypothetical protein |
| RA | 1,642,808 | T→C | 15.6% | Q66Q (CAA→CAG) | ypfJ ← | conserved hypothetical protein |
| RA | 1,682,955 | G→A | 8.6% | R673R (CGC→CGT) | yfhM ← | conserved hypothetical protein |
| RA | 1,763,524 | T→C | 17.2% | noncoding (320/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,535 | T→C | 9.4% | noncoding (309/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,537 | G→T | 10.0% | noncoding (307/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,541 | T→C | 8.8% | noncoding (303/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,550 | A→G | 6.4% | noncoding (294/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,551 | C→T | 6.4% | noncoding (293/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,553 | A→G | 6.4% | noncoding (291/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,556 | T→C | 33.3% | noncoding (288/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,558 | G→T | 5.7% | noncoding (286/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,560 | G→T | 5.6% | noncoding (284/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,763,636 | A→G | 30.4% | noncoding (208/1542 nt) | rrsG ← | 16S ribosomal RNA |
| RA | 1,804,090 | G→A | 55.7% | 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 | 1,893,021 | G→T | 10.4% | intergenic (‑142/+97) | ygdL ← / ← mltA | conserved hypothetical protein/membrane‑bound lytic murein transglycosylase A |
| RA | 1,896,687 | C→A | 6.7% | Q137K (CAG→AAG) | argA → | fused acetylglutamate kinase homolog (inactive) and amino acid N‑acetyltransferase |
| RA | 1,970,934 | C→T | 8.0% | E658K (GAG→AAG) | speA ← | biosynthetic arginine decarboxylase, PLP‑binding |
| RA | 1,970,940 | C→G | 8.6% | E656Q (GAA→CAA) | speA ← | biosynthetic arginine decarboxylase, PLP‑binding |
| RA | 2,065,298 | T→C | 7.7% | D513D (GAT→GAC) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | 2,065,301 | T→C | 7.7% | D514D (GAT→GAC) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | 2,065,304 | A→C | 7.1% | E515D (GAA→GAC) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | 2,108,696 | A→T | 5.1% | D156V (GAT→GTT) | kbaY → | tagatose 6‑phosphate aldolase 1, kbaY subunit |
| RA | 2,262,864 | G→A | 10.6% | S215S (TCC→TCT) | rplA ← | 50S ribosomal subunit protein L1 |
| RA | 2,359,867 | G→A | 42.9% | noncoding (1228/2905 nt) | rrlA ← | 23S ribosomal RNA |
| RA | 2,359,876 | C→T | 34.5% | noncoding (1219/2905 nt) | rrlA ← | 23S ribosomal RNA |
| RA | 2,436,114 | G→A | 9.5% | T608I (ACC→ATC) | rep ← | DNA helicase and single‑stranded DNA‑dependent ATPase |
| RA | 2,507,753 | C→T | 17.4% | L273L (CTA→TTA) | yicI → | predicted alpha‑glucosidase |
| RA | 2,589,325 | A→G | 11.0% | intergenic (‑1/+798) | gadE ← / ← hdeD | DNA‑binding transcriptional activator/acid‑resistance membrane protein |
| RA | 2,676,291 | G→T | 5.5% | V14F (GTT→TTT) | bioH → | carboxylesterase of pimeloyl‑CoA synthesis |
| RA | 2,859,245 | G→T | 8.0% | D58Y (GAT→TAT) | mutL → | methyl‑directed mismatch repair protein |
| RA | 2,886,319 | G→A | 12.3% | G191S (GGT→AGT) | ytfI → | hypothetical protein |
| RA | 2,948,260 | G→A | 7.8% | intergenic (‑20/+118) | yjjB ← / ← yjjP | conserved inner membrane protein/predicted inner membrane protein |
| RA | 2,982,587 | T→C | 11.8% | G97G (GGT→GGC) | creB → | DNA‑binding response regulator in two‑component regulatory system with CreC |
| RA | 2,982,599 | C→T | 11.5% | Y101Y (TAC→TAT) | creB → | DNA‑binding response regulator in two‑component regulatory system with CreC |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | Exported | = 7063 | 40 (0.650) | 16 (0.280) +GATT |
10/92 | NT | 42.0% | coding (897/1431 nt) | yaaJ | predicted transporter |
| ? | Exported | = 1611756 | 8 (0.130) | coding (1397/1404 nt) | eutA | reactivating factor for ethanolamine ammonia lyase | |||||
| * | ? | Exported | 207434 = | NA (NA) | 5 (0.090) | 3/94 | NT | NA | noncoding (2851/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | Exported | 207455 = | NA (NA) | noncoding (2872/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | Exported | = 215622 | 46 (0.750) | 38 (1.350) +27 bp |
20/46 | NT | 62.3% | coding (732/732 nt) | dnaQ | DNA polymerase III epsilon subunit |
| ? | Exported | 2705182 = | 54 (0.880) | intergenic (+106/‑1) | damX/dam | hypothetical protein/DNA adenine methylase | |||||
| * | ? | Exported | 401088 = | 97 (1.580) | 5 (0.090) | 3/88 | NT | 7.1% | coding (448/1212 nt) | dacA | D‑alanyl‑D‑alanine carboxypeptidase |
| ? | Exported | 401124 = | 46 (0.850) | coding (412/1212 nt) | dacA | D‑alanyl‑D‑alanine carboxypeptidase | |||||
| * | ? | Exported | 436259 = | 48 (0.780) | 66 (1.170) | 29/92 | NT | 63.7% | intergenic (‑156/‑29) | ybfF/seqA | conserved hypothetical protein/regulatory protein for replication initiation |
| ? | Exported | = 2706018 | 31 (0.550) | coding (836/837 nt) | dam | DNA adenine methylase | |||||
| * | ? | Exported | = 436833 | 83 (1.360) | 107 (1.750) | 41/100 | NT | 57.1% | coding (546/546 nt) | seqA | regulatory protein for replication initiation |
| ? | Exported | 1803907 = | 78 (1.270) | intergenic (+63/‑28) | ygaH/mprA | predicted inner membrane protein/DNA‑binding transcriptional regulator | |||||
| * | ? | Exported | = 603740 | 34 (0.560) | 3 (0.070) | 3/72 | NT | 9.2% | intergenic (+22/‑188) | ycaD/ycaM | predicted transporter/predicted transporter |
| ? | Exported | = 603748 | 35 (0.790) | intergenic (+30/‑180) | ycaD/ycaM | predicted transporter/predicted transporter | |||||
| * | ? | Exported | 1334516 = | 56 (0.910) | 7 (0.110) | 3/100 | NT | 10.0% | coding (313/480 nt) | nudD | GDP‑mannose mannosyl hydrolase |
| ? | Exported | 1334537 = | 70 (1.140) | coding (292/480 nt) | nudD | GDP‑mannose mannosyl hydrolase | |||||
| * | ? | Exported | = 1537671 | 73 (1.190) | 9 (0.170) | 3/88 | NT | 10.7% | coding (834/897 nt) | yfcT | predicted outer membrane export usher protein |
| ? | Exported | = 1537689 | 86 (1.600) | coding (816/897 nt) | yfcT | predicted outer membrane export usher protein | |||||
| * | ? | Exported | 1611749 = | 5 (0.080) | 23 (0.440) +ATGCGGT |
12/86 | NT | 49.8% | coding (1404/1404 nt) | eutA | reactivating factor for ethanolamine ammonia lyase |
| ? | Exported | = 2603083 | 49 (0.800) | coding (684/753 nt) | yhiQ | predicted SAM‑dependent methyltransferase | |||||
| * | ? | Exported | 2267011 = | 89 (1.450) | 5 (0.090) | 3/90 | NT | 7.3% | intergenic (‑12/‑350) | thrU/coaA | tRNA‑Thr/pantothenate kinase |
| ? | Exported | 2267032 = | 46 (0.840) | intergenic (‑33/‑329) | thrU/coaA | tRNA‑Thr/pantothenate kinase | |||||
| * | ? | Exported | 2749095 = | 70 (1.140) | 7 (0.130) | 3/90 | NT | 10.2% | coding (1168/1332 nt) | secY | preprotein translocase membrane subunit |
| ? | Exported | 2749115 = | 60 (1.090) | coding (1188/1332 nt) | secY | preprotein translocase membrane subunit | |||||