mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 15,571 | T→C | 100% | L43L (TTG→CTG) | EK12AG100_RS00080 → | IS4‑like element IS421 family transposase |
| MC JC | 61,414 | Δ168 bp | 100% | [rapA] | [rapA] | |
| RA | 66,696 | T→C | 94.1% | Q8R (CAG→CGG) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase |
| MC JC | 66,701 | 3540 bp→27 bp | 100% | [araD]–araB | [araD], araA, araB | |
| RA | 70,457 | G→T | 85.2% | intergenic (‑241/‑98) | araB ← / → araC | ribulokinase/arabinose operon transcriptional regulator AraC |
| RA | 246,915 | T→G | 85.5% | S12S (TCT→TCG) | EK12AG100_RS01160 → | C40 family peptidase |
| RA | 283,927 | G→T | 87.6% | A445A (GCG→GCT) | EK12AG100_RS01390 → | xylonate dehydratase YagF |
| RA | 312,935 | A→G | 73.7% | intergenic (‑301/+173) | EK12AG100_RS01540 ← / ← EK12AG100_RS24935 | hypothetical protein/oxidoreductase |
| JC | 339,148 | 93 bp x 4 | 26.8% | amplification | [EK12AG100_RS01670] | [EK12AG100_RS01670] |
| RA | 339,164 | A→G | 18.2% | intergenic (+29/‑21) | EK12AG100_RS01665 → / → EK12AG100_RS01670 | DUF1116 domain‑containing protein/hypothetical protein |
| RA | 339,185 | A→G | 14.3% | M1M (ATG→GTG) † | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,192 | A→G | 15.1% | Q3R (CAA→CGA) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,234 | T→C | 27.2% | V17A (GTC→GCC) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,240 | T→C | 27.7% | I19T (ATT→ACT) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,257 | A→G | 31.6% | N25D (AAC→GAC) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,278 | A→G | 45.6% | M32V (ATG→GTG) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,285 | A→G | 45.3% | Q34R (CAA→CGA) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,327 | T→C | 30.9% | V48A (GTC→GCC) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,333 | T→C | 28.6% | I50T (ATT→ACT) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,350 | A→G | 12.1% | N56D (AAC→GAC) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 339,383:1 | +C | 8.5% | coding (199/204 nt) | EK12AG100_RS01670 → | hypothetical protein |
| RA | 365,818 | G→A | 53.3% | A331V (GCG→GTG) | EK12AG100_RS01780 ← | DNA‑binding transcriptional repressor LacI |
| RA | 384,896 | A→C | 100% | G122G (GGA→GGC) | tauA → | taurine ABC transporter substrate‑binding protein |
| RA | 393,261 | T→C | 79.8% | pseudogene (987/1443 nt) | EK12AG100_RS01925 → | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | 464,304 | A→G | 76.7% | V181V (GTT→GTC) | queC ← | 7‑cyano‑7‑deazaguanine synthase QueC |
| RA | 472,148 | A→G | 12.0% | G84G (GGA→GGG) | glnK → | P‑II family nitrogen regulator |
| RA | 494,921 | T→C | 77.3% | I168T (ATC→ACC) | htpG → | molecular chaperone HtpG |
| RA | 502,728 | C→T | 75.1% | intergenic (‑191/+47) | EK12AG100_RS02465 ← / ← EK12AG100_RS02470 | Kef family K(+) transporter/fosmidomycin MFS transporter |
| RA | 534,041 | A→G | 82.1% | D276G (GAT→GGT) | gcl → | glyoxylate carboligase |
| RA | 575,186 | A→G | 10.8% | intergenic (‑134/‑83) | EK12AG100_RS02845 ← / → rzoD | IS5‑like element IS5 family transposase/prophage lysis lipoprotein RzoD |
| RA | 575,207 | C→G | 9.3% | intergenic (‑155/‑62) | EK12AG100_RS02845 ← / → rzoD | IS5‑like element IS5 family transposase/prophage lysis lipoprotein RzoD |
| RA | 575,273 | G→T | 8.0% | R2L (CGA→CTA) | rzoD → | prophage lysis lipoprotein RzoD |
| RA | 575,369 | C→G | 85.2% | P34R (CCG→CGG) | rzoD → | prophage lysis lipoprotein RzoD |
| RA | 575,513 | T→C | 90.3% | intergenic (+62/+29) | rzoD → / ← bor | prophage lysis lipoprotein RzoD/serum resistance lipoprotein Bor |
| RA | 575,516 | C→A | 90.8% | intergenic (+65/+26) | rzoD → / ← bor | prophage lysis lipoprotein RzoD/serum resistance lipoprotein Bor |
| RA | 575,547 | G→T | 87.0% | Q97K (CAA→AAA) | bor ← | serum resistance lipoprotein Bor |
| RA | 575,671 | G→A | 88.2% | A55A (GCC→GCT) | bor ← | serum resistance lipoprotein Bor |
| RA | 575,751 | C→T | 86.9% | A29T (GCA→ACA) | bor ← | serum resistance lipoprotein Bor |
| RA | 575,753 | G→T | 87.3% | P28Q (CCG→CAG) | bor ← | serum resistance lipoprotein Bor |
| RA | 575,773 | C→T | 89.5% | T21T (ACG→ACA) | bor ← | serum resistance lipoprotein Bor |
| RA | 575,946 | T→C | 91.1% | intergenic (‑111/+179) | bor ← / ← EK12AG100_RS02865 | serum resistance lipoprotein Bor/DUF1398 domain‑containing protein |
| RA | 576,036:1 | +A | 100% | intergenic (‑201/+89) | bor ← / ← EK12AG100_RS02865 | serum resistance lipoprotein Bor/DUF1398 domain‑containing protein |
| RA | 576,068 | C→T | 81.9% | intergenic (‑233/+57) | bor ← / ← EK12AG100_RS02865 | serum resistance lipoprotein Bor/DUF1398 domain‑containing protein |
| RA | 576,075 | C→T | 81.7% | intergenic (‑240/+50) | bor ← / ← EK12AG100_RS02865 | serum resistance lipoprotein Bor/DUF1398 domain‑containing protein |
| RA | 576,087 | G→A | 82.6% | intergenic (‑252/+38) | bor ← / ← EK12AG100_RS02865 | serum resistance lipoprotein Bor/DUF1398 domain‑containing protein |
| RA | 576,212 | A→G | 85.4% | H108H (CAT→CAC) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,226 | C→T | 85.2% | V104I (GTT→ATT) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,326 | G→A | 92.7% | N70N (AAC→AAT) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,398 | G→A | 93.4% | I46I (ATC→ATT) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,443 | G→A | 100% | N31N (AAC→AAT) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,481 | C→T | 100% | D19N (GAC→AAC) | EK12AG100_RS02865 ← | DUF1398 domain‑containing protein |
| RA | 576,592 | T→C | 100% | intergenic (‑57/‑229) | EK12AG100_RS02865 ← / → EK12AG100_RS02870 | DUF1398 domain‑containing protein/hypothetical protein |
| RA | 576,658 | C→A | 93.4% | intergenic (‑123/‑163) | EK12AG100_RS02865 ← / → EK12AG100_RS02870 | DUF1398 domain‑containing protein/hypothetical protein |
| RA | 576,752 | T→C | 100% | intergenic (‑217/‑69) | EK12AG100_RS02865 ← / → EK12AG100_RS02870 | DUF1398 domain‑containing protein/hypothetical protein |
| RA | 576,961 | A→G | 92.6% | R47R (AGA→AGG) | EK12AG100_RS02870 → | hypothetical protein |
| RA | 577,056 | T→C | 93.1% | intergenic (+29/+136) | EK12AG100_RS02870 → / ← EK12AG100_RS02875 | hypothetical protein/YlcI/YnfO family protein |
| RA | 577,060 | A→G | 7.1% | intergenic (+33/+132) | EK12AG100_RS02870 → / ← EK12AG100_RS02875 | hypothetical protein/YlcI/YnfO family protein |
| RA | 577,061 | C→T | 7.1% | intergenic (+34/+131) | EK12AG100_RS02870 → / ← EK12AG100_RS02875 | hypothetical protein/YlcI/YnfO family protein |
| RA | 577,243 | T→C | 93.6% | R48R (AGA→AGG) | EK12AG100_RS02875 ← | YlcI/YnfO family protein |
| RA | 577,658 | A→G | 100% | intergenic (‑272/‑117) | EK12AG100_RS02875 ← / → EK12AG100_RS02885 | YlcI/YnfO family protein/DNA‑packaging protein |
| RA | 577,983 | G→T | 87.7% | R70L (CGG→CTG) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 577,997 | G→A | 88.9% | A75T (GCA→ACA) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 578,014 | G→A | 11.5% | G80G (GGG→GGA) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 578,059 | C→T | 86.9% | D95D (GAC→GAT) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 578,068 | A→G | 100% | E98E (GAA→GAG) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 578,126 | T→C | 100% | L118L (TTG→CTG) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 578,168 | C→A | 100% | L132I (CTC→ATC) | EK12AG100_RS02885 → | DNA‑packaging protein |
| RA | 579,538 | T→C | 100% | N61S (AAT→AGT) | EK12AG100_RS02895 ← | class I SAM‑dependent methyltransferase |
| RA | 691,882 | A→G | 100% | L5L (CTT→CTC) | miaB ← | tRNA (N6‑isopentenyl adenosine(37)‑C2)‑methylthiotransferase MiaB |
| RA | 693,411 | T→C | 88.8% | intergenic (+194/+72) | ubiF → / ← EK12AG100_RS03430 | 2‑octaprenyl‑3‑methyl‑6‑methoxy‑1,4‑benzoquinol hydroxylase/tRNA‑Gln |
| RA | 701,954 | T→C | 87.3% | L357S (TTG→TCG) | nagE → | PTS N‑acetyl glucosamine transporter subunit IIABC |
| RA | 705,715 | A→G | 94.8% | A147A (GCA→GCG) | chiP → | chitoporin |
| RA | 718,545 | A→G | 100% | C44R (TGT→CGT) | kdpE ← | two‑component system response regulator KdpE |
| RA | 777,565 | T→C | 88.3% | noncoding (71/76 nt) | EK12AG100_RS03840 → | tRNA‑Lys |
| RA | 786,521 | A→C | 100% | pseudogene (400/1149 nt) | galK ← | galactokinase |
| RA | 841,645 | A→T | 86.0% | G7G (GGA→GGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,648 | C→A | 88.2% | V8V (GTC→GTA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,687 | C→A | 87.5% | T21T (ACC→ACA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,690 | T→C | 87.7% | I22I (ATT→ATC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,702 | C→A | 85.7% | A26A (GCC→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,704 | G→A | 85.7% | R27K (AGA→AAA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,736 | G→C | 84.3% | V38L (GTG→CTG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,740 | G→C | 84.3% | G39A (GGC→GCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,747 | G→A | 84.5% | E41E (GAG→GAA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,780 | T→C | 83.1% | D52D (GAT→GAC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,783 | G→T | 83.0% | V53V (GTG→GTT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,801 | T→C | 83.1% | S59S (AGT→AGC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,804 | C→T | 83.9% | V60V (GTC→GTT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,807 | C→T | 82.5% | I61I (ATC→ATT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,811 | C→T | 81.7% | Q63* (CAG→TAG) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,812 | A→T | 81.7% | Q63L (CAG→CTG) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,816 | T→G | 83.0% | V64V (GTT→GTG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,819 | C→A | 82.9% | D65E (GAC→GAA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,822 | T→A | 83.1% | G66G (GGT→GGA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,825 | T→C | 82.5% | F67F (TTT→TTC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,828 | A→G | 83.9% | P68P (CCA→CCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,831 | A→G | 82.0% | P69P (CCA→CCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,834 | G→A | 83.3% | S70S (TCG→TCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,837 | C→T | 84.8% | H71H (CAC→CAT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,849 | C→T | 83.9% | I75I (ATC→ATT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,867 | A→T | 83.2% | S81S (TCA→TCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,873 | G→C | 83.7% | P83P (CCG→CCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,876 | G→T | 83.7% | G84G (GGG→GGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,895 | T→G | 81.6% | C91G (TGT→GGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,921 | G→T | 81.5% | R99R (CGG→CGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,929 | T→C | 81.2% | V102A (GTG→GCG) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,930 | G→A | 80.5% | V102V (GTG→GTA) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,936 | T→C | 81.4% | R104R (CGT→CGC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,940 | C→T | 82.2% | L106F (CTT→TTT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,980 | T→C | 100% | V119A (GTG→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,992 | G→A | 100% | S123N (AGT→AAT) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 841,993 | T→C | 84.9% | S123S (AGT→AGC) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,001 | A→C | 100% | D126A (GAC→GCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,011 | A→G | 100% | K129K (AAA→AAG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,018 | G→A | 100% | G132S (GGC→AGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,020 | C→T | 100% | G132S (GGC→AGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,029 | 2 bp→CA | 100% | coding (405‑406/2325 nt) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,038 | 3 bp→CCG | 100% | coding (414‑416/2325 nt) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,042 | C→G | 100% | Q140E (CAG→GAG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,046 | 2 bp→CG | 100% | coding (422‑423/2325 nt) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,050 | 2 bp→AA | 100% | coding (426‑427/2325 nt) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,055 | T→A | 100% | L144H (CTT→CAT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,058 | T→C | 100% | V145A (GTG→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,060 | A→G | 100% | T146A (ACT→GCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,068 | 2 bp→TG | 100% | coding (444‑445/2325 nt) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,071 | T→G | 100% | T149A (ACT→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,086 | C→A | 88.6% | A154A (GCC→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,098 | C→A | 86.4% | S158S (TCC→TCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,110 | T→C | 86.1% | A162A (GCT→GCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,113 | A→G | 85.7% | A163A (GCA→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,119 | A→G | 85.7% | S165S (TCA→TCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,126 | G→T | 87.1% | E168* (GAA→TAA) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,127 | A→C | 87.5% | E168A (GAA→GCA) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,134 | C→T | 90.7% | S170S (TCC→TCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,138 | G→A | 90.5% | G172S (GGC→AGC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,145 | A→G | 90.9% | E174G (GAA→GGA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,147 | G→A | 90.9% | A175T (GCG→ACG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,156 | G→A | 91.3% | A178T (GCA→ACA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,173 | G→A | 89.4% | A183A (GCG→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,174 | G→T | 89.4% | E184* (GAA→TAA) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,175 | A→C | 89.7% | E184A (GAA→GCA) ‡ | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,185 | C→T | 100% | A187A (GCC→GCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,188 | A→C | 100% | A188A (GCA→GCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,191 | C→T | 100% | A189A (GCC→GCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,208 | A→G | 93.2% | N195S (AAC→AGC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,258 | G→T | 100% | A212S (GCA→TCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,268 | A→T | 100% | Q215L (CAA→CTA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,278 | C→A | 100% | A218A (GCC→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,284 | G→A | 100% | T220T (ACG→ACA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,290 | C→A | 100% | A222A (GCC→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,300 | G→A | 100% | A226T (GCC→ACC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,308 | A→G | 100% | K228K (AAA→AAG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,311 | G→A | 100% | A229A (GCG→GCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,317 | G→A | 100% | E231E (GAG→GAA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,320 | C→T | 100% | A232A (GCC→GCT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,323 | C→G | 100% | A233A (GCC→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,326 | T→C | 100% | T234T (ACT→ACC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,329 | A→G | 100% | S235S (TCA→TCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,332 | A→C | 100% | A236A (GCA→GCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,335 | A→G | 100% | R237R (CGA→CGG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,343 | T→C | 100% | V240A (GTG→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,356 | G→A | 100% | E244E (GAG→GAA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,359 | A→G | 100% | A245A (GCA→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,392 | T→C | 100% | S256S (AGT→AGC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,396 | G→A | 100% | G258S (GGT→AGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,399 | C→A | 100% | R259S (CGT→AGT) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,427 | A→G | 100% | E268G (GAA→GGA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,434 | T→C | 100% | S270S (TCT→TCC) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,437 | C→G | 100% | A271A (GCC→GCG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,439 | G→A | 100% | R272K (AGG→AAG) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| RA | 842,516 | G→T | 30.8% | A298S (GCA→TCA) | EK12AG100_RS23550 → | short‑chain dehydrogenase |
| JC | 932,107 | Δ168 bp | 100% | [EK12AG100_RS04715] | [EK12AG100_RS04715] | |
| RA | 1,011,377 | A→G | 100% | N158D (AAT→GAT) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 1,015,338 | A→C | 11.2% | L202V (TTA→GTA) | elyC ← | envelope biogenesis factor ElyC |
| RA | 1,082,666 | T→G | 94.2% | L277L (CTT→CTG) | EK12AG100_RS05400 → | cytochrome d ubiquinol oxidase subunit II |
| RA | 1,104,475 | A→G | 91.6% | N46S (AAC→AGC) | torD → | molecular chaperone TorD |
| RA | 1,123,847 | G→A | 100% | intergenic (+494/‑49) | putP → / → EK12AG100_RS05615 | sodium/proline symporter PutP/FTR1 family protein |
| RA | 1,154,267 | 2 bp→CC | 100% | coding (865‑866/2544 nt) | mdoH → | glucans biosynthesis glucosyltransferase MdoH |
| RA | 1,212,376 | G→A | 93.2% | P179L (CCG→CTG) | ldtC ← | L,D‑transpeptidase LdtC |
| RA | 1,232,520 | G→A | 93.6% | T156T (ACC→ACT) | phoP ← | two‑component system response regulator PhoP |
| RA | 1,238,760 | T→C | 100% | H366H (CAT→CAC) | EK12AG100_RS06230 → | NADP‑dependent isocitrate dehydrogenase |
| RA | 1,238,772 | T→C | 100% | T370T (ACT→ACC) | EK12AG100_RS06230 → | NADP‑dependent isocitrate dehydrogenase |
| RA | 1,238,785 | C→T | 100% | L375L (CTG→TTA) | EK12AG100_RS06230 → | NADP‑dependent isocitrate dehydrogenase |
| RA | 1,238,787 | G→A | 100% | L375L (CTG→TTA) | EK12AG100_RS06230 → | NADP‑dependent isocitrate dehydrogenase |
| RA | 1,328,213 | T→A | 92.0% | Y271N (TAT→AAT) | oppA → | oligopeptide ABC transporter substrate‑binding protein OppA |
| RA | 1,332,957 | G→T | 100% | A325S (GCC→TCC) | oppF → | murein tripeptide/oligopeptide ABC transporter ATP binding protein OppF |
| RA | 1,334,905 | C→T | 89.9% | intergenic (‑39/‑104) | cls ← / → EK12AG100_RS25580 | cardiolipin synthase/YciY family protein |
| RA | 1,357,280 | A→T | 93.1% | A4A (GCA→GCT) | topA → | type I DNA topoisomerase |
| RA | 1,357,281 | T→C | 93.2% | F5L (TTT→CTT) | topA → | type I DNA topoisomerase |
| RA | 1,363,615 | A→G | 100% | S522G (AGC→GGC) | acnA → | aconitate hydratase AcnA |
| RA | 1,385,080 | C→T | 100% | C110Y (TGT→TAT) | puuP ← | putrescine/proton symporter PuuP |
| RA | 1,518,134 | A→C | 100% | E217A (GAG→GCG) | EK12AG100_RS07620 → | ABC transporter permease |
| RA | 1,595,365 | A→C | 100% | pseudogene (466/1323 nt) | hipA ← | type II toxin‑antitoxin system serine/threonine protein kinase toxin HipA |
| RA | 1,632,901 | T→C | 87.3% | I11I (ATT→ATC) | ydfZ → | putative selenium delivery protein YdfZ |
| RA | 1,636,186 | T→C | 7.4% | intergenic (‑247/‑358) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,206 | A→C | 11.3% | intergenic (‑267/‑338) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,208 | G→A | 11.5% | intergenic (‑269/‑336) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,209 | T→C | 11.6% | intergenic (‑270/‑335) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,213 | T→A | 11.6% | intergenic (‑274/‑331) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,308 | T→C | 39.1% | intergenic (‑369/‑236) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,366 | A→G | 45.0% | intergenic (‑427/‑178) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,389 | G→A | 47.3% | intergenic (‑450/‑155) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,424 | T→C | 52.6% | intergenic (‑485/‑120) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,491 | A→G | 54.0% | intergenic (‑552/‑53) | EK12AG100_RS08145 ← / → EK12AG100_RS25635 | MHS family MFS transporter/Rac prophage; protein YnaM |
| RA | 1,636,567 | A→T | 48.9% | T8T (ACA→ACT) | EK12AG100_RS25635 → | Rac prophage; protein YnaM |
| RA | 1,636,570 | T→G | 47.4% | S9S (TCT→TCG) | EK12AG100_RS25635 → | Rac prophage; protein YnaM |
| RA | 1,636,603 | C→T | 45.2% | A20A (GCC→GCT) | EK12AG100_RS25635 → | Rac prophage; protein YnaM |
| RA | 1,636,877 | A→C | 54.9% | K51T (AAA→ACA) | EK12AG100_RS08150 → | cold shock protein YdfK |
| RA | 1,637,283 | A→G | 45.0% | Q3R (CAA→CGA) | EK12AG100_RS08155 → | recombinase family protein |
| RA | 1,637,578 | G→T | 50.4% | G101G (GGG→GGT) | EK12AG100_RS08155 → | recombinase family protein |
| RA | 1,637,722 | A→T | 49.9% | P149P (CCA→CCT) | EK12AG100_RS08155 → | recombinase family protein |
| RA | 1,637,751 | C→T | 51.9% | A159V (GCG→GTG) | EK12AG100_RS08155 → | recombinase family protein |
| RA | 1,638,293 | C→T | 50.6% | D83N (GAC→AAC) | EK12AG100_RS08160 ← | tail fiber assembly protein |
| RA | 1,638,677 | T→C | 16.1% | A275A (GCA→GCG) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,680 | A→G | 16.1% | H274H (CAT→CAC) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,683 | C→T | 15.9% | A273A (GCG→GCA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,686 | G→A | 15.9% | G272G (GGC→GGT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,713 | C→T | 9.7% | S263S (TCG→TCA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,725 | A→T | 8.9% | A259A (GCT→GCA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,947 | G→A | 10.2% | T185T (ACC→ACT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,950 | T→G | 10.0% | G184G (GGA→GGC) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,976 | C→T | 10.9% | E176K (GAA→AAA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,638,989 | C→T | 10.9% | T171T (ACG→ACA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,016 | G→A | 11.2% | H162H (CAC→CAT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,046 | T→C | 10.8% | L152L (TTA→TTG) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,067 | G→A | 10.6% | P145P (CCC→CCT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,070 | C→T | 10.6% | K144K (AAG→AAA) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,124 | A→G | 9.9% | V126V (GTT→GTC) ‡ | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,125 | A→G | 9.9% | V126A (GTT→GCT) ‡ | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,142 | T→A | 10.4% | A120A (GCA→GCT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,159 | T→C | 11.0% | T115A (ACT→GCT) | EK12AG100_RS08165 ← | tail fiber protein |
| RA | 1,639,728 | T→C | 100% | E98E (GAA→GAG) | EK12AG100_RS08170 ← | DNA‑packaging protein |
| RA | 1,639,737 | G→A | 21.0% | D95D (GAC→GAT) | EK12AG100_RS08170 ← | DNA‑packaging protein |
| RA | 1,639,799 | C→T | 100% | A75T (GCA→ACA) | EK12AG100_RS08170 ← | DNA‑packaging protein |
| RA | 1,639,813 | C→A | 13.0% | R70L (CGG→CTG) | EK12AG100_RS08170 ← | DNA‑packaging protein |
| RA | 1,639,827 | T→C | 11.5% | E65E (GAA→GAG) | EK12AG100_RS08170 ← | DNA‑packaging protein |
| RA | 1,640,036 | A→C | 93.1% | intergenic (‑15/‑374) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,640,067 | C→A | 10.5% | intergenic (‑46/‑343) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,640,077 | T→C | 9.1% | intergenic (‑56/‑333) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,640,109 | G→A | 10.4% | intergenic (‑88/‑301) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,640,138 | T→C | 87.8% | intergenic (‑117/‑272) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,640,157 | C→T | 87.9% | intergenic (‑136/‑253) | EK12AG100_RS08170 ← / → EK12AG100_RS08175 | DNA‑packaging protein/YlcI/YnfO family protein |
| RA | 1,647,333 | T→A | 90.5% | Q209L (CAG→CTG) | EK12AG100_RS08235 ← | DUF968 domain‑containing protein |
| RA | 1,724,790 | T→C | 86.7% | F38L (TTT→CTT) | EK12AG100_RS08655 → | DUF1656 domain‑containing protein |
| RA | 1,780,369 | T→A | 90.7% | C377S (TGT→AGT) | EK12AG100_RS08915 → | acyl CoA:acetate/3‑ketoacid CoA transferase |
| JC | 1,870,601 | Δ182 bp | 100% | [EK12AG100_RS09385] | [EK12AG100_RS09385] | |
| RA | 1,898,675 | C→T | 91.4% | P12L (CCC→CTC) | pabB → | aminodeoxychorismate synthase component 1 |
| JC | 1,982,569 | (ATTA)2→1 | 86.7% | intergenic (‑536/‑117) | flhD ← / → uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| RA | 2,043,369 | A→C | 89.0% | D319A (GAC→GCC) | msrP → | protein‑methionine‑sulfoxide reductase catalytic subunit MsrP |
| RA | 2,123,905 | A→G | 83.7% | L196L (TTG→CTG) | EK12AG100_RS10745 ← | UDP‑glucose‑‑undecaprenyl‑phosphate glucose‑1‑phosphate transferase |
| RA | 2,145,534 | A→G | 88.5% | L117L (CTT→CTC) | EK12AG100_RS10840 ← | uridine kinase |
| RA | 2,176,382 | T→C | 88.6% | Q277Q (CAA→CAG) | EK12AG100_RS10970 ← | galactitol permease IIC component |
| RA | 2,236,543 | T→C | 100% | pseudogene (10/240 nt) | EK12AG100_RS11245 → | DUF2542 family protein |
| JC | 2,242,224 | +58 bp | 100% | intergenic (‑1/+2) | mglA ← / ← mglB | galactose/methyl galactoside ABC transporter ATP‑binding protein MglA/galactose/glucose ABC transporter substrate‑binding protein MglB |
| RA | 2,245,123 | T→C | 84.8% | R241G (AGG→GGG) | EK12AG100_RS11285 ← | DUF418 family protein |
| RA | 2,250,010 | C→A | 85.6% | D467Y (GAC→TAC) | lysP ← | lysine‑specific permease |
| RA | 2,393,995 | A→G | 85.0% | F129F (TTT→TTC) | nuoN ← | NADH‑quinone oxidoreductase subunit NuoN |
| RA | 2,407,278 | A→G | 90.9% | L71S (TTG→TCG) | EK12AG100_RS12000 ← | NADH‑quinone oxidoreductase subunit NuoB |
| RA | 2,455,265 | A→G | 86.1% | pseudogene (2613/2646 nt) | yfcU ← | fimbrial usher protein YfcU |
| RA | 2,455,266 | A→G | 87.5% | pseudogene (2612/2646 nt) | yfcU ← | fimbrial usher protein YfcU |
| RA | 2,473,744 | G→C | 16.5% | pseudogene (54/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,750 | C→T | 17.1% | pseudogene (60/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,753 | G→A | 18.1% | pseudogene (63/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,767 | T→C | 21.7% | pseudogene (77/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,777 | T→C | 23.3% | pseudogene (87/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,780 | A→G | 23.9% | pseudogene (90/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,801 | G→A | 26.5% | pseudogene (111/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,811 | A→G | 26.3% | pseudogene (121/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,849 | A→G | 28.5% | pseudogene (159/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,855 | T→C | 28.0% | pseudogene (165/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,858 | G→A | 28.4% | pseudogene (168/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,861 | G→T | 28.0% | pseudogene (171/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,864 | G→A | 28.5% | pseudogene (174/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,869 | T→C | 28.5% | pseudogene (179/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,879 | G→A | 28.4% | pseudogene (189/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,882 | C→A | 28.3% | pseudogene (192/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,883 | T→A | 29.1% | pseudogene (193/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,886 | C→A | 30.7% | pseudogene (196/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,895 | A→G | 30.1% | pseudogene (205/291 nt) | EK12AG100_RS12330 → | tail fiber assembly protein |
| RA | 2,473,977 | A→C | 25.3% | pseudogene (287/291 nt) T139T (ACT→ACG) |
EK12AG100_RS12330 → EK12AG100_RS12335 ← |
tail fiber assembly protein tail fiber assembly protein |
| RA | 2,474,007 | A→T | 18.1% | T129T (ACT→ACA) | EK12AG100_RS12335 ← | tail fiber assembly protein |
| RA | 2,474,013 | G→A | 16.7% | V127V (GTC→GTT) | EK12AG100_RS12335 ← | tail fiber assembly protein |
| RA | 2,474,019 | C→T | 14.4% | E125E (GAG→GAA) | EK12AG100_RS12335 ← | tail fiber assembly protein |
| RA | 2,474,028 | G→T | 9.4% | D122E (GAC→GAA) | EK12AG100_RS12335 ← | tail fiber assembly protein |
| RA | 2,484,484 | G→A | 86.8% | S190L (TCA→TTA) | emrY ← | multidrug efflux MFS transporter permease subunit EmrY |
| RA | 2,501,268 | C→A | 82.2% | intergenic (‑97/‑279) | EK12AG100_RS12470 ← / → EK12AG100_RS12475 | alanine transaminase/two‑component system sensor histidine kinase YpdA |
| RA | 2,517,333 | T→C | 100% | L43L (TTG→CTG) | EK12AG100_RS12545 → | IS4‑like element IS421 family transposase |
| MC JC | 2,523,883 | Δ120 bp | 100% | [EK12AG100_RS12585] | [EK12AG100_RS12585] | |
| RA | 2,549,680 | A→T | 86.1% | E44D (GAA→GAT) | murP → | PTS N‑acetylmuramic acid transporter subunit IIBC |
| RA | 2,574,113 | C→T | 91.4% | E147E (GAG→GAA) | EK12AG100_RS12855 ← | NADP‑dependent oxaloacetate‑decarboxylating malate dehydrogenase |
| RA | 2,583,288 | T→C | 89.0% | V461A (GTA→GCA) | narQ → | nitrate/nitrite two‑component system sensor histidine kinase NarQ |
| JC | 2,694,580 | Δ128 bp | 100% | [EK12AG100_RS25720] | [EK12AG100_RS25720] | |
| RA | 2,741,904 | G→A | 84.8% | H107Y (CAC→TAC) | rimM ← | ribosome maturation factor RimM |
| RA | 2,771,251 | A→G | 81.8% | S544G (AGT→GGT) | EK12AG100_RS13785 → | hypothetical protein |
| RA | 2,783,895 | G→A | 82.3% | intergenic (+157/‑51) | EK12AG100_RS25740 → / → EK12AG100_RS25255 | alpha amylase/alpha amylase |
| RA | 2,840,314 | G→T | 93.9% | R67R (CGC→CGA) | hycG ← | formate hydrogenlyase subunit HycG |
| RA | 2,863,759 | A→G | 87.7% | pseudogene (97/993 nt) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 2,876,939 | C→T | 94.3% | L138L (TTG→TTA) | cas5e ← | type I‑E CRISPR‑associated protein Cas5/CasD |
| RA | 2,923,076 | A→C | 85.5% | G155G (GGA→GGC) | ppnN → | nucleotide 5'‑monophosphate nucleosidase |
| RA | 3,021,900:1 | +T | 100% | pseudogene (1246/1400 nt) | xanQ → | xanthine/proton symporter XanQ |
| RA | 3,067,161 | T→G | 13.7% | K129N (AAA→AAC) | fbaA ← | class II fructose‑bisphosphate aldolase |
| RA | 3,106,724 | C→A | 90.7% | noncoding (56/76 nt) | EK12AG100_RS15430 → | tRNA‑Phe |
| RA | 3,204,060:1 | +G | 86.5% | pseudogene (177/605 nt) | ttdB → | L(+)‑tartrate dehydratase subunit beta |
| RA | 3,272,414 | T→A | 92.7% | D207E (GAT→GAA) | garD → | galactarate dehydratase |
| RA | 3,292,993 | A→G | 89.3% | M25V (ATG→GTG) | yraP → | divisome‑associated lipoprotein YraP |
| RA | 3,326,255 | T→G | 90.0% | Y261D (TAT→GAT) | dacB → | serine‑type D‑Ala‑D‑Ala carboxypeptidase |
| RA | 3,373,942 | T→C | 88.5% | intergenic (‑10/+385) | sspA ← / ← rpsI | stringent starvation protein A/30S ribosomal protein S9 |
| RA | 3,384,553 | G→T | 85.8% | P50T (CCG→ACG) | aaeB ← | p‑hydroxybenzoic acid efflux pump subunit AaeB |
| RA | 3,408,201 | T→G | 84.2% | pseudogene (37/885 nt) | yhdJ → | adenine‑specific DNA‑methyltransferase |
| RA | 3,419,861 | G→A | 18.6% | pseudogene (25/81 nt) | EK12AG100_RS25785 → | paraslipin |
| RA | 3,419,868 | T→C | 16.7% | pseudogene (32/81 nt) | EK12AG100_RS25785 → | paraslipin |
| RA | 3,419,895 | A→G | 12.2% | pseudogene (59/81 nt) | EK12AG100_RS25785 → | paraslipin |
| RA | 3,419,910 | C→T | 9.8% | pseudogene (74/81 nt) | EK12AG100_RS25785 → | paraslipin |
| RA | 3,419,924 | T→C | 8.6% | intergenic (+7/+13) | EK12AG100_RS25785 → / ← rrf | paraslipin/5S ribosomal RNA |
| RA | 3,430,412 | T→C | 100% | L71L (TTA→CTA) | EK12AG100_RS17055 → | peptide deformylase |
| RA | 3,470,937 | C→T | 100% | R43K (AGA→AAA) | rpsL ← | 30S ribosomal protein S12 |
| RA | 3,482,687 | A→G | 89.3% | Y19C (TAC→TGC) | crp → | cAMP‑activated global transcriptional regulator CRP |
| RA | 3,483,014 | T→C | 89.2% | I128T (ATT→ACT) | crp → | cAMP‑activated global transcriptional regulator CRP |
| RA | 3,493,618 | A→G | 89.4% | D35G (GAC→GGC) | nirC → | nitrite transporter NirC |
| RA | 3,503,761 | T→C | 85.5% | N30D (AAC→GAC) | EK12AG100_RS17515 ← | membrane protein |
| RA | 3,507,978 | T→C | 94.9% | V293V (GTA→GTG) | EK12AG100_RS17545 ← | transcriptional regulator |
| RA | 3,551,559 | T→G | 85.1% | C655G (TGC→GGC) ‡ | malT → | HTH‑type transcriptional regulator MalT |
| RA | 3,551,560 | G→T | 86.1% | C655F (TGC→TTC) ‡ | malT → | HTH‑type transcriptional regulator MalT |
| RA | 3,556,874 | A→G | 89.3% | V82A (GTC→GCC) | EK12AG100_RS17745 ← | DeoR/GlpR family transcriptional regulator |
| RA | 3,643,483 | T→G | 100% | H224Q (CAT→CAG) | gorA → | glutathione‑disulfide reductase |
| RA | 3,643,941 | T→C | 91.7% | V377A (GTG→GCG) | gorA → | glutathione‑disulfide reductase |
| RA | 3,660,267 | T→C | 5.8% | intergenic (+227/+136) | EK12AG100_RS18230 → / ← gadW | multidrug efflux pump RND permease MdtF/acid resistance transcriptional activator GadW |
| RA | 3,704,396 | A→G | 85.9% | intergenic (‑178/+565) | dppA ← / ← EK12AG100_RS23155 | dipeptide ABC transporter substrate‑binding protein DppA/RtT sRNA |
| RA | 3,704,460 | A→C | 100% | intergenic (‑242/+501) | dppA ← / ← EK12AG100_RS23155 | dipeptide ABC transporter substrate‑binding protein DppA/RtT sRNA |
| RA | 3,715,942 | A→G | 85.8% | intergenic (‑385/‑49) | EK12AG100_RS18455 ← / → EK12AG100_RS18460 | DUF3053 domain‑containing protein/HTH‑type transcriptional regulator |
| RA | 3,717,968 | T→C | 87.3% | L259L (CTT→CTC) | EK12AG100_RS25320 → | IS3‑like element IS150 family transposase |
| RA | 3,721,689 | G→T | 90.5% | A48E (GCG→GAG) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,724,623:1 | +C | 100% | coding (1261/1353 nt) | xylB ← | xylulokinase |
| RA | 3,725,952 | T→C | 89.5% | intergenic (‑69/+3) | xylB ← / ← xylA | xylulokinase/xylose isomerase |
| RA | 3,725,953 | T→C | 89.5% | intergenic (‑70/+2) | xylB ← / ← xylA | xylulokinase/xylose isomerase |
| RA | 3,727,072 | T→C | 86.8% | pseudogene (206/1323 nt) | xylA ← | xylose isomerase |
| RA | 3,765,417 | A→T | 6.3% | D16V (GAT→GTT) | EK12AG100_RS24535 → | hypothetical protein |
| RA | 3,766,256 | C→T | 100% | intergenic (+64/+499) | EK12AG100_RS18690 → / ← EK12AG100_RS18695 | hypothetical protein/HlyD family secretion protein |
| RA | 3,767,051 | T→C | 94.4% | M281V (ATG→GTG) | EK12AG100_RS18695 ← | HlyD family secretion protein |
| RA | 3,769,682:1 | +G | 84.0% | pseudogene (890/1913 nt) | EK12AG100_RS18705 → | PTS mannitol transporter subunit IICBA |
| RA | 3,769,687 | T→C | 85.1% | pseudogene (895/1913 nt) | EK12AG100_RS18705 → | PTS mannitol transporter subunit IICBA |
| RA | 3,799,456 | T→G | 72.9% | K38N (AAA→AAC) | waaO ← | lipopolysaccharide 3‑alpha‑galactosyltransferase |
| RA | 3,812,391 | Δ1 bp | 100% | coding (671/717 nt) | EK12AG100_RS18930 ← | ribonuclease PH |
| RA | 3,813,679 | T→C | 88.0% | T164T (ACT→ACC) | EK12AG100_RS18935 → | YicC family protein |
| RA | 3,862,813 | G→A | 87.4% | intergenic (‑28/+168) | EK12AG100_RS19170 ← / ← ibpB | putative transporter/heat shock chaperone IbpB |
| RA | 3,862,823 | A→G | 88.2% | intergenic (‑38/+158) | EK12AG100_RS19170 ← / ← ibpB | putative transporter/heat shock chaperone IbpB |
| RA | 3,894,419 | A→G | 76.5% | I134M (ATA→ATG) | EK12AG100_RS19335 → | hypothetical protein |
| RA | 3,917,872 | T→C | 82.9% | Q231R (CAG→CGG) ‡ | atpB ← | F0F1 ATP synthase subunit A |
| RA | 3,917,873 | G→A | 82.9% | Q231* (CAG→TAG) ‡ | atpB ← | F0F1 ATP synthase subunit A |
| RA | 3,925,308 | T→C | 81.7% | T270A (ACG→GCG) | viaA ← | ATPase RavA stimulator ViaA |
| RA | 3,925,375 | T→C | 84.5% | T247T (ACA→ACG) | viaA ← | ATPase RavA stimulator ViaA |
| RA | 3,970,446 | T→C | 6.3% | H122H (CAT→CAC) | rfbA → | glucose‑1‑phosphate thymidylyltransferase RfbA |
| RA | 4,022,771 | T→G | 23.7% | Y437* (TAT→TAG) | ubiD → | 4‑hydroxy‑3‑polyprenylbenzoate decarboxylase |
| RA | 4,023,922 | T→G | 7.1% | intergenic (+221/+160) | EK12AG100_RS19960 → / ← fadA | NAD(P)H‑flavin reductase/acetyl‑CoA C‑acyltransferase FadA |
| RA | 4,033,969 | A→T | 10.2% | intergenic (+161/‑14) | EK12AG100_RS20005 → / → EK12AG100_RS20010 | tRNA‑Ala/23S ribosomal RNA |
| RA | 4,090,243 | C→T | 87.5% | G168D (GGC→GAC) | rhaD ← | rhamnulose‑1‑phosphate aldolase |
| RA | 4,150,309 | A→G | 89.8% | pseudogene (1012/1152 nt) | argE ← | acetylornithine deacetylase |
| RA | 4,157,721 | G→T | 100% | G43V (GGC→GTC) | fabR → | HTH‑type transcriptional repressor FabR |
| RA | 4,160,596 | C→G | 86.9% | A162G (GCA→GGA) | btuB → | TonB‑dependent vitamin B12 receptor BtuB |
| RA | 4,168,395 | C→A | 23.9% | intergenic (‑68/‑135) | EK12AG100_RS25840 ← / → EK12AG100_RS20635 | paraslipin/UDP‑N‑acetylmuramate dehydrogenase |
| RA | 4,168,398 | C→T | 23.7% | intergenic (‑71/‑132) | EK12AG100_RS25840 ← / → EK12AG100_RS20635 | paraslipin/UDP‑N‑acetylmuramate dehydrogenase |
| JC | 4,168,400 | +183 bp | 22.3% | intergenic (‑73/‑130) | EK12AG100_RS25840 ← / → EK12AG100_RS20635 | paraslipin/UDP‑N‑acetylmuramate dehydrogenase |
| RA | 4,190,469 | G→T | 86.1% | A70D (GCT→GAT) | thiE ← | thiamine phosphate synthase |
| RA | 4,212,143 | T→G | 79.9% | Y65D (TAT→GAT) | aceB → | malate synthase A |
| RA | 4,292,533 | T→C | 100% | intergenic (+266/+376) | gltP → / ← EK12AG100_RS21205 | glutamate/aspartate:proton symporter GltP/sel1 repeat family protein |
| RA | 4,292,741 | C→T | 100% | intergenic (+474/+168) | gltP → / ← EK12AG100_RS21205 | glutamate/aspartate:proton symporter GltP/sel1 repeat family protein |
| RA | 4,292,853:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← EK12AG100_RS21205 | glutamate/aspartate:proton symporter GltP/sel1 repeat family protein |
| RA | 4,303,525 | T→C | 86.8% | N250D (AAT→GAT) | alsK ← | allose kinase |
| RA | 4,303,694 | C→T | 89.6% | L193L (CTG→CTA) | alsK ← | allose kinase |
| RA | 4,322,117 | T→C | 85.4% | N33S (AAC→AGC) | yjdN ← | VOC family metalloprotein YjdN |
| RA | 4,328,363 | T→C | 100% | L463L (CTT→CTC) | EK12AG100_RS21375 → | glycine betaine/L‑proline transporter ProP |
| RA | 4,334,583 | Δ1 bp | 100% | intergenic (‑181/+145) | EK12AG100_RS21405 ← / ← adiA | DNA‑binding transcriptional activator AdiY/arginine decarboxylase |
| RA | 4,434,364 | T→C | 90.2% | pseudogene (184/939 nt) | EK12AG100_RS21930 → | hypothetical protein |
| RA | 4,443,520 | T→A | 88.8% | S979T (TCC→ACC) | tamB → | autotransporter assembly complex protein TamB |
| RA | 4,470,374 | T→C | 90.1% | R52G (AGA→GGA) | bdcA ← | SDR family oxidoreductase |
| RA | 4,471,308 | A→G | 89.4% | intergenic (+117/‑28) | EK12AG100_RS22100 → / → EK12AG100_RS22105 | TetR/AcrR family transcriptional regulator/YhcH/YjgK/YiaL family protein |
| RA | 4,471,967 | C→T | 88.6% | F19F (TTC→TTT) | EK12AG100_RS22110 → | hypothetical protein |
| RA | 4,473,079 | A→G | 100% | N390S (AAC→AGC) | EK12AG100_RS22110 → | hypothetical protein |
| RA | 4,485,490 | T→C | 100% | K350E (AAA→GAA) | EK12AG100_RS22160 ← | DUF853 domain‑containing protein |
| RA | 4,506,712 | G→T | 90.4% | intergenic (+105/+452) | EK12AG100_RS25865 → / ← EK12AG100_RS22290 | hypothetical protein/Fe(3+) dicitrate ABC transporter ATP‑binding protein FecE |
| RA | 4,528,883 | G→T | 93.5% | intergenic (‑99/+28) | EK12AG100_RS25395 ← / ← EK12AG100_RS22405 | hypothetical protein/class I SAM‑dependent methyltransferase |
| RA | 4,539,156 | Δ1 bp | 6.0% | intergenic (+49/‑433) | fimE → / → fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| RA | 4,543,075 | T→C | 84.3% | I502I (ATT→ATC) | fimD → | fimbrial biogenesis usher protein FimD |
| RA | 4,581,954 | G→A | 88.3% | Q427* (CAA→TAA) | hsdR ← | type I restriction‑modification system endonuclease |
| RA | 4,598,983 | C→T | 93.3% | W117* (TGG→TAG) | EK12AG100_RS22750 ← | threonine/serine exporter ThrE family protein |
| RA | 4,613,143 | G→T | 88.9% | L133I (CTA→ATA) | EK12AG100_RS22840 ← | YjjI family glycine radical enzyme |
| RA | 4,633,399 | C→G | 90.3% | P77R (CCC→CGC) | creC → | two‑component system sensor histidine kinase CreC |
| RA | 4,634,714 | A→G | 86.1% | L21L (TTA→TTG) | creD → | cell envelope integrity protein CreD |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_LN832404 | 804284 | 841614 | 37331 | 78 [6] | [39] 40 | EK12AG100_RS03995–EK12AG100_RS04290 | EK12AG100_RS03995,EK12AG100_RS04000,EK12AG100_RS04005,EK12AG100_RS04010,EK12AG100_RS04015,EK12AG100_RS04020,EK12AG100_RS04025,EK12AG100_RS04035,EK12AG100_RS04040,EK12AG100_RS04045,bet,EK12AG100_RS04055,EK12AG100_RS25515,EK12AG100_RS25520,EK12AG100_RS25525,EK12AG100_RS04070,EK12AG100_RS04075,EK12AG100_RS04080,EK12AG100_RS04085,EK12AG100_RS04100,EK12AG100_RS04105,EK12AG100_RS04110,EK12AG100_RS04115,EK12AG100_RS04120,EK12AG100_RS25015,EK12AG100_RS04130,EK12AG100_RS04135,EK12AG100_RS04140,EK12AG100_RS04145,EK12AG100_RS23540,EK12AG100_RS04150,EK12AG100_RS04155,EK12AG100_RS04160,EK12AG100_RS04165,EK12AG100_RS04170,EK12AG100_RS04175,EK12AG100_RS23545,EK12AG100_RS04180,EK12AG100_RS04185,rzoD,EK12AG100_RS04195,EK12AG100_RS04200,EK12AG100_RS04205,EK12AG100_RS04210,EK12AG100_RS04215,EK12AG100_RS04220,EK12AG100_RS04225,EK12AG100_RS04230,EK12AG100_RS04235,EK12AG100_RS04240,EK12AG100_RS04245,EK12AG100_RS04250,EK12AG100_RS04255,EK12AG100_RS04260,EK12AG100_RS04265,EK12AG100_RS04270,EK12AG100_RS04275,EK12AG100_RS04280,EK12AG100_RS04285,EK12AG100_RS04290 |
| * | * | ÷ | NZ_LN832404 | 1438017 | 1438724 | 708 | 40 [38] | [39] 41 | [ttcA] | [ttcA] |
| * | * | ÷ | NZ_LN832404 | 1982193 | 1982362 | 170 | 40 [39] | [0] 92 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_LN832404 | 2561438 | 2561761 | 324 | 41 [39] | [39] 40 | [EK12AG100_RS12790]–[eutA] | [EK12AG100_RS12790],EK12AG100_RS25715,[eutA] |
| * | * | ÷ | NZ_LN832404 | 3126616–3127647 | 3127964 | 318–1349 | 40 [39] | [0] 48 | [EK12AG100_RS15510] | [EK12AG100_RS15510] |
| * | * | ÷ | NZ_LN832404 | 3420322–3421032 | 3421032 | 1–711 | 40 [38] | [39] 40 | [EK12AG100_RS17000] | [EK12AG100_RS17000] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_LN832404 | = 61489 | 0 (0.000) | 10 (0.170) | 10/412 | NT | 100% | intergenic (‑76/+87) | EK12AG100_RS23030/rapA | RNA polymerase‑associated protein RapA/RNA polymerase‑associated protein RapA |
| ? | NZ_LN832404 | = 381811 | NA (NA) | coding (847/914 nt) | EK12AG100_RS01865 | IS3‑like element IS2 family transposase | |||||
| * | ? | NZ_LN832404 | 269933 = | NA (NA) | 89 (1.070) | 81/568 | NT | 87.3% | pseudogene (7/72 nt) | EK12AG100_RS25460 | phage tail protein |
| ? | NZ_LN832404 | = 371058 | 13 (0.160) | coding (521/867 nt) | EK12AG100_RS01800 | 2‑hydroxy‑6‑oxonona‑2,4‑dienedioate hydrolase | |||||
| * | ? | NZ_LN832404 | 270023 = | NA (NA) | 5 (0.090) | 5/388 | NT | 100% | coding (29/1152 nt) | EK12AG100_RS01310 | IS30‑like element IS30 family transposase |
| ? | NZ_LN832404 | = 2694669 | 0 (0.000) | intergenic (‑90/+36) | yfhb/EK12AG100_RS25720 | phosphatidylglycerophosphatase C/phosphatidylglycerophosphatase C | |||||
| * | ? | NZ_LN832404 | = 274541 | NA (NA) | 7 (0.080) | 7/568 | NT | 9.1% | intergenic (‑32/‑176) | EK12AG100_RS01335/mmuP | IS5‑like element IS5 family transposase/S‑methylmethionine permease |
| ? | NZ_LN832404 | 576125 = | 70 (0.840) | coding (411/411 nt) | EK12AG100_RS02865 | DUF1398 domain‑containing protein | |||||
| * | ? | NZ_LN832404 | = 363654 | 22 (0.260) | 32 (0.450) +42 bp |
16/484 | NT | 43.4% | coding (1951/3075 nt) | EK12AG100_RS01775 | beta‑galactosidase |
| ? | NZ_LN832404 | 3419771 = | 76 (0.910) | intergenic (+65/‑66) | EK12AG100_RS16980/EK12AG100_RS25785 | amino acid ABC transporter ATP‑binding protein/paraslipin | |||||
| * | ? | NZ_LN832404 | 371057 = | 13 (0.160) | 87 (1.050) | 75/568 | NT | 87.0% | coding (520/867 nt) | EK12AG100_RS01800 | 2‑hydroxy‑6‑oxonona‑2,4‑dienedioate hydrolase |
| ? | NZ_LN832404 | = 1474170 | NA (NA) | intergenic (+7/‑457) | EK12AG100_RS07415/EK12AG100_RS23745 | IS30‑like element IS30 family transposase/twice split molybdate metabolism regulator domain protein | |||||
| * | ? | NZ_LN832404 | = 381810 | NA (NA) | 13 (0.220) | 13/410 | NT | 100% | coding (846/914 nt) | EK12AG100_RS01865 | IS3‑like element IS2 family transposase |
| ? | NZ_LN832404 | = 932184 | 0 (0.000) | intergenic (‑74/‑445) | EK12AG100_RS04715/EK12AG100_RS04720 | aspartate:alanine antiporter/hypothetical protein | |||||
| * | ? | NZ_LN832404 | = 575053 | 0 (0.000) | 79 (1.030) | 3/522 | NT | 100% | intergenic (‑1/‑216) | EK12AG100_RS02845/rzoD | IS5‑like element IS5 family transposase/prophage lysis lipoprotein RzoD |
| ? | NZ_LN832404 | 1982363 = | 0 (0.000) | intergenic (‑330/‑326) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_LN832404 | = 578602 | 77 (0.930) | 7 (0.120) | 7/390 | NT | 21.0% | coding (308/744 nt) | EK12AG100_RS02890 | phage terminase large subunit family protein |
| ? | NZ_LN832404 | 822993 = | 0 (0.000) | coding (129/1746 nt) | EK12AG100_RS04195 | phage terminase large subunit family protein | |||||
| * | ? | NZ_LN832404 | = 804283 | 5 (0.060) | 64 (0.810) | 62/538 | NT | 92.3% | intergenic (‑61/+74) | EK12AG100_RS03990/EK12AG100_RS03995 | putative acyl‑CoA thioester hydrolase/tyrosine‑type recombinase/integrase |
| ? | NZ_LN832404 | 849715 = | 6 (0.080) | intergenic (‑766/+90) | EK12AG100_RS04330/EK12AG100_RS04335 | AAA family ATPase/kinase inhibitor | |||||
| * | ? | NZ_LN832404 | 932185 = | 0 (0.000) | 8 (0.140) | 8/400 | NT | 100% | intergenic (‑75/‑444) | EK12AG100_RS04715/EK12AG100_RS04720 | aspartate:alanine antiporter/hypothetical protein |
| ? | NZ_LN832404 | = 1472810 | NA (NA) | coding (39/361 nt) | EK12AG100_RS07405 | IS3‑like element IS2 family transposase | |||||
| * | ? | NZ_LN832404 | = 1472808 | NA (NA) | 8 (0.140) | 8/396 | NT | 100% | coding (41/361 nt) | EK12AG100_RS07405 | IS3‑like element IS2 family transposase |
| ? | NZ_LN832404 | = 1870685 | 0 (0.000) | intergenic (‑559/‑65) | EK12AG100_RS09380/EK12AG100_RS09385 | scaffolding protein MipA/protein kinase YeaG | |||||
| * | ? | NZ_LN832404 | = 1474132 | NA (NA) | 6 (0.080) | 5/492 | NT | 100% | coding (1121/1152 nt) | EK12AG100_RS07415 | IS30‑like element IS30 family transposase |
| ? | NZ_LN832404 | 2694668 = | 0 (0.000) | intergenic (‑89/+37) | yfhb/EK12AG100_RS25720 | phosphatidylglycerophosphatase C/phosphatidylglycerophosphatase C | |||||
| * | ? | NZ_LN832404 | = 1655111 | NA (NA) | 8 (0.140) | 8/386 | NT | 100% | pseudogene (616/696 nt) | EK12AG100_RS08315 | IS3‑like element IS2 family transposase |
| ? | NZ_LN832404 | 1870686 = | 0 (0.000) | intergenic (‑560/‑64) | EK12AG100_RS09380/EK12AG100_RS09385 | scaffolding protein MipA/protein kinase YeaG | |||||
| * | ? | NZ_LN832404 | 2069112 = | 90 (1.080) | 46 (0.720) | 6/440 | NT | 56.9% | intergenic (‑117/+129) | EK12AG100_RS23990/EK12AG100_RS10470 | cobalamin biosynthesis protein/IS5‑like element IS5 family transposase |
| ? | NZ_LN832404 | 3127965 = | 0 (0.000) | intergenic (+468/+15) | EK12AG100_RS15510/EK12AG100_RS15515 | IS5‑like element IS5 family transposase/lipopolysaccharide biosynthesis protein | |||||
| * | ? | NZ_LN832404 | 3127981 = | 0 (0.000) | 55 (1.160) +121 bp |
50/326 | NT | 100% | pseudogene (941/942 nt) | EK12AG100_RS15515 | lipopolysaccharide biosynthesis protein |
| ? | NZ_LN832404 | 3648543 = | NA (NA) | coding (740/783 nt) | EK12AG100_RS18170 | hypothetical protein | |||||
| * | ? | NZ_LN832404 | = 4090463 | 4 (0.050) | 55 (0.740) +29 bp |
46/510 | NT | 87.8% | coding (283/825 nt) | rhaD | rhamnulose‑1‑phosphate aldolase |
| ? | NZ_LN832404 | 4093925 = | 13 (0.160) | intergenic (‑4/‑284) | rhaB/EK12AG100_RS20290 | rhamnulokinase/HTH‑type transcriptional activator RhaS | |||||
| * | ? | NZ_LN832404 | 4539156 = | 40 (0.480) | 23 (0.290) | 23/550 | NT | 34.9% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NZ_LN832404 | 4539470 = | 47 (0.580) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NZ_LN832404 | = 4539164 | 39 (0.470) | 23 (0.290) | 23/550 | NT | 35.2% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NZ_LN832404 | = 4539460 | 47 (0.580) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||