mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 19,111 | C→T | H133Y (CAC→TAC) | nhaR → | DNA‑binding transcriptional activator NhaR |
| RA | 64,536 | C→T | V415V (GTG→GTA) | polB ← | DNA polymerase II |
| RA | 64,539 | T→C | S414S (TCA→TCG) | polB ← | DNA polymerase II |
| RA | 64,593 | C→T | P396P (CCG→CCA) | polB ← | DNA polymerase II |
| RA | 64,635 | A→G | H382H (CAT→CAC) | polB ← | DNA polymerase II |
| RA | 64,641 | T→A | R380R (CGA→CGT) | polB ← | DNA polymerase II |
| RA | 64,644 | C→A | P379P (CCG→CCT) | polB ← | DNA polymerase II |
| RA | 64,665 | T→C | A372A (GCA→GCG) | polB ← | DNA polymerase II |
| RA | 64,677 | A→T | G368G (GGT→GGA) | polB ← | DNA polymerase II |
| RA | 64,680 | G→C | G367G (GGC→GGG) | polB ← | DNA polymerase II |
| RA | 64,686 | T→G | R365R (CGA→CGC) | polB ← | DNA polymerase II |
| RA | 64,692 | C→T | V363V (GTG→GTA) | polB ← | DNA polymerase II |
| RA | 64,713 | T→C | A356A (GCA→GCG) | polB ← | DNA polymerase II |
| RA | 64,716 | C→T | R355R (CGG→CGA) | polB ← | DNA polymerase II |
| RA | 64,749 | G→A | H344H (CAC→CAT) | polB ← | DNA polymerase II |
| RA | 64,755 | G→A | I342I (ATC→ATT) | polB ← | DNA polymerase II |
| RA | 64,794 | T→C | A329A (GCA→GCG) | polB ← | DNA polymerase II |
| RA | 64,883 | G→A | L300L (CTA→TTA) | polB ← | DNA polymerase II |
| RA | 64,896 | A→G | T295T (ACT→ACC) | polB ← | DNA polymerase II |
| RA | 65,028 | G→A | S251S (AGC→AGT) | polB ← | DNA polymerase II |
| RA | 65,031 | A→G | N250N (AAT→AAC) | polB ← | DNA polymerase II |
| RA | 65,043 | A→C | L246L (CTT→CTG) | polB ← | DNA polymerase II |
| RA | 65,046 | A→C | R245R (CGT→CGG) | polB ← | DNA polymerase II |
| RA | 65,057 | G→T | L242I (CTT→ATT) | polB ← | DNA polymerase II |
| RA | 65,169 | C→T | L204L (TTG→CTA) | polB ← | DNA polymerase II |
| RA | 65,171 | A→G | L204L (TTG→CTA) | polB ← | DNA polymerase II |
| RA | 65,202 | G→A | F193F (TTC→TTT) | polB ← | DNA polymerase II |
| RA | 65,208 | A→G | L191L (CTT→CTC) | polB ← | DNA polymerase II |
| RA | 65,213 | A→C | S190A (TCG→GCG) | polB ← | DNA polymerase II |
| RA | 65,232 | C→T | P183P (CCG→CCA) | polB ← | DNA polymerase II |
| RA | 65,316 | T→A | I155I (ATA→ATT) | polB ← | DNA polymerase II |
| RA | 65,381 | T→C | T134A (ACT→GCT) | polB ← | DNA polymerase II |
| RA | 65,454 | A→G | R109R (CGT→CGC) | polB ← | DNA polymerase II |
| RA | 65,594 | A→C | F63V (TTT→GTT) | polB ← | DNA polymerase II |
| RA | 65,785 | A→T | intergenic (‑5/+70) | polB ← / ← araD | DNA polymerase II/L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 65,788 | A→T | intergenic (‑8/+67) | polB ← / ← araD | DNA polymerase II/L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 65,811 | G→T | intergenic (‑31/+44) | polB ← / ← araD | DNA polymerase II/L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 65,905 | C→T | D216N (GAT→AAT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,024 | Δ1 bp | coding (527/696 nt) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,032 | C→T | P173P (CCG→CCA) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,041 | G→A | S170S (TCC→TCT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,053 | A→G | V166V (GTT→GTC) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,092 | A→G | F153F (TTT→TTC) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,134 | G→A | G139G (GGC→GGT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,227 | A→G | G108G (GGT→GGC) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,245 | G→A | T102T (ACC→ACT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,263 | C→T | T96T (ACG→ACA) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,266 | A→G | H95H (CAT→CAC) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,287 | G→C | P88P (CCC→CCG) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,308 | C→T | R81R (CGG→CGA) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,323 | G→A | D76D (GAC→GAT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,343 | T→C | T70A (ACG→GCG) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,403 | C→T | V50I (GTC→ATC) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,494 | G→A | H19H (CAC→CAT) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| RA | 66,518 | T→C | E11E (GAA→GAG) | araD ← | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| MC JC | 66,633 | Δ9,290 bp | araA–[sgrR] | araA, araB, araC, yabI, thiQ, thiP, thiB, sroA, [sgrR] | |
| RA | 75,938 | T→A | L454L (CTA→CTT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 75,950 | A→G | S450S (AGT→AGC) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 75,953 | T→C | E449E (GAA→GAG) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 75,966 | 2 bp→TC | coding (1333‑1334/1656 nt) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 75,984 | 2 bp→CT | coding (1315‑1316/1656 nt) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,000 | T→C | K434E (AAA→GAA) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,082 | T→C | L406L (CTA→CTG) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,086 | G→A | T405I (ACC→ATC) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,283 | C→T | L339L (CTG→CTA) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,334 | G→A | G322G (GGC→GGT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,358 | C→A | G314G (GGG→GGT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,364 | G→A | A312A (GCC→GCT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,478 | A→G | I274I (ATT→ATC) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,576 | G→A | L242L (CTG→TTG) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,700 | A→G | D200D (GAT→GAC) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,727 | G→A | H191H (CAC→CAT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,775 | A→T | I175I (ATT→ATA) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 76,862 | G→A | I146I (ATC→ATT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 77,021 | C→T | L93L (CTG→CTA) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 77,027 | A→G | D91D (GAT→GAC) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 77,117 | G→A | R61R (CGC→CGT) | sgrR ← | DNA‑binding transcriptional dual regulator SgrR |
| RA | 77,776 | C→A | G52G (GGC→GGA) | setA → | sugar exporter SetA |
| RA | 78,406 | A→T | G262G (GGA→GGT) | setA → | sugar exporter SetA |
| RA | 78,520 | C→A | F300L (TTC→TTA) | setA → | sugar exporter SetA |
| RA | 78,524 | A→C | N302H (AAT→CAT) | setA → | sugar exporter SetA |
| RA | 78,533 | A→C | M305L (ATG→CTG) | setA → | sugar exporter SetA |
| RA | 78,761 | G→A | V381I (GTC→ATC) | setA → | sugar exporter SetA |
| RA | 79,040 | A→G | A138A (GCT→GCC) | leuD ← | 3‑isopropylmalate dehydratase subunit LeuD |
| RA | 80,529 | C→G | G112G (GGG→GGC) | leuC ← | 3‑isopropylmalate dehydratase subunit LeuC |
| RA | 82,633 | T→G | I299I (ATA→ATC) | leuA ← | 2‑isopropylmalate synthase |
| RA | 82,894 | T→G | G212G (GGA→GGC) | leuA ← | 2‑isopropylmalate synthase |
| RA | 82,909 | C→T | L207L (TTG→TTA) | leuA ← | 2‑isopropylmalate synthase |
| RA | 82,933 | G→A | I199I (ATC→ATT) | leuA ← | 2‑isopropylmalate synthase |
| RA | 82,957 | C→T | V191V (GTG→GTA) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,179 | C→T | E117E (GAG→GAA) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,182 | G→A | D116D (GAC→GAT) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,296 | T→C | E78E (GAA→GAG) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,317 | A→G | C71C (TGT→TGC) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,344 | G→A | A62A (GCC→GCT) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,359 | C→T | S57S (TCG→TCA) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,371 | G→A | G53G (GGC→GGT) | leuA ← | 2‑isopropylmalate synthase |
| RA | 83,383 | G→A | V49V (GTC→GTT) | leuA ← | 2‑isopropylmalate synthase |
| RA | 84,251 | G→T | intergenic (‑543/‑117) | leuL ← / → leuO | leu operon leader peptide/DNA‑binding transcriptional dual regulator LeuO |
| RA | 84,267 | G→C | intergenic (‑559/‑101) | leuL ← / → leuO | leu operon leader peptide/DNA‑binding transcriptional dual regulator LeuO |
| RA | 84,305 | 2 bp→CG | intergenic (‑597/‑62) | leuL ← / → leuO | leu operon leader peptide/DNA‑binding transcriptional dual regulator LeuO |
| RA | 84,415 | A→G | K16K (AAA→AAG) | leuO → | DNA‑binding transcriptional dual regulator LeuO |
| RA | 85,481 | T→C | R11G (AGA→GGA) | yabR ← | protein YabR |
| RA | 86,241 | A→G | V204V (GTA→GTG) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 86,271 | C→T | G214G (GGC→GGT) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 86,315 | C→T | T229M (ACG→ATG) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 86,345 | G→C | C239S (TGC→TCC) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 86,658 | A→G | P343P (CCA→CCG) | ilvI → | acetolactate synthase/acetohydroxybutanoate synthase, catalytic subunit |
| RA | 87,410 | C→T | R18R (CGC→CGT) | ilvH → | acetolactate synthase/acetohydroxybutanoate synthase, regulatory subunit |
| RA | 89,089 | C→A | intergenic (+57/‑545) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,103 | G→C | intergenic (+71/‑531) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,143 | A→G | intergenic (+111/‑491) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,145 | G→T | intergenic (+113/‑489) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,239 | G→A | intergenic (+207/‑395) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,241 | C→A | intergenic (+209/‑393) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,263 | A→G | intergenic (+231/‑371) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,316 | T→C | intergenic (+284/‑318) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,321 | A→G | intergenic (+289/‑313) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,471 | T→G | intergenic (+439/‑163) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,570 | A→C | intergenic (+538/‑64) | cra → / → mraZ | DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ |
| RA | 89,699 | T→C | Y22Y (TAT→TAC) | mraZ → | DNA‑binding transcriptional repressor MraZ |
| RA | 89,754 | T→C | Y41H (TAT→CAT) | mraZ → | DNA‑binding transcriptional repressor MraZ |
| RA | 90,432 | A→G | E113E (GAA→GAG) | rsmH → | 16S rRNA m(4)C1402 methyltransferase |
| RA | 90,435 | T→C | R114R (CGT→CGC) | rsmH → | 16S rRNA m(4)C1402 methyltransferase |
| RA | 91,904 | G→A | E164E (GAG→GAA) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 91,916 | C→T | Y168Y (TAC→TAT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 91,922 | G→A | P170P (CCG→CCA) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 91,949 | C→T | I179I (ATC→ATT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,096 | A→T | A228A (GCA→GCT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,162 | C→T | N250N (AAC→AAT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,327 | G→T | P305P (CCG→CCT) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,354 | A→G | V314V (GTA→GTG) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,687 | A→G | P425P (CCA→CCG) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,810 | T→C | T466T (ACT→ACC) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 92,843 | A→G | P477P (CCA→CCG) | ftsI → | peptidoglycan DD‑transpeptidase FtsI |
| RA | 94,278 | G→A | A371A (GCG→GCA) | murE → | UDP‑N‑acetylmuramoyl‑L‑alanyl‑D‑glutamate‑‑2, 6‑diaminopimelate ligase |
| RA | 246,747 | G→T | S12S (TCG→TCT) | yafL → | NlpC/P60 family protein YafL |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| MC JC | 401,670 | Δ728 bp | [phoA] | [phoA] | |
| RA | 480,295 | 2 bp→AA | coding (13‑14/219 nt) | hha ← | hemolysin expression‑modulating protein Hha |
| JC JC | 536,576 | IS1 (+) +9 bp | intergenic (+90/‑2) | hyi → / → glxR | hydroxypyruvate isomerase/tartronate semialdehyde reductase 2 |
| RA | 553,161 | G→A | intergenic (‑61/+57) | purE ← / ← lpxH | N(5)‑carboxyaminoimidazole ribonucleotide mutase/UDP‑2,3‑diacylglucosamine diphosphatase |
| RA | 690,948 | G→A | V279V (GTC→GTT) | ybeX ← | CorC‑HlyC family protein YbeX |
| RA | 700,038 | G→A | H97Y (CAT→TAT) | umpH ← | UMP phosphatase |
| JC JC | 789,812 | IS2 (–) +5 bp | coding (164‑168/1149 nt) | galK ← | galactokinase |
| RA | 791,688 | G→A | S123F (TCC→TTC) | galE ← | UDP‑glucose 4‑epimerase |
| RA | 809,217 | 2 bp→AG | coding (40‑41/1290 nt) | bioA ← | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| RA | 968,837 | G→A | D158N (GAT→AAT) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 1,040,126 | G→T | L277L (CTG→CTT) | appB → | cytochrome bd‑II subunit 2 |
| RA | 1,061,935 | G→A | S46N (AGC→AAC) | torD → | trimethylamine‑N‑oxide reductase‑specific chaperone |
| JC JC | 1,093,481 | IS2 (+) +5 bp | coding (606‑610/1359 nt) | dgcT → | putative diguanylate cyclase DgcT |
| RA | 1,100,070 | G→A | C144Y (TGT→TAT) | ycdY → | chaperone protein YcdY |
| RA | 1,111,727 | 2 bp→TT | coding (865‑866/2544 nt) | opgH → | osmoregulated periplasmic glucans biosynthesis protein H |
| RA | 1,123,556 | C→T | E167K (GAA→AAA) | grxB ← | reduced glutaredoxin 2 |
| RA | 1,169,836 | A→G | L180P (CTG→CCG) | ldtC ← | L,D‑transpeptidase LdtC |
| RA | 1,189,980 | A→G | T156T (ACT→ACC) | phoP ← | DNA‑binding transcriptional dual regulator PhoP |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,280 | G→C | A386A (GCG→GCC) | icd → | isocitrate dehydrogenase |
| RA | 1,196,283 | A→G | K387K (AAA→AAG) | icd → | isocitrate dehydrogenase |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,301,992 | A→T | N271Y (AAT→TAT) | oppA → | oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,306,736 | T→G | S325A (TCC→GCC) | oppF → | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppF |
| RA | 1,310,770 | A→G | H32H (CAT→CAC) | yciI ← | protein YciI |
| RA | 1,331,947 | C→T | G300G (GGC→GGT) | topA → | DNA topoisomerase 1 |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,357,202 | C→T | intergenic (‑92/+221) | sapA ← / ← ymjA | putative periplasmic binding protein SapA/DUF2543 domain‑containing protein YmjA |
| RA | 1,412,897 | G→A | L113L (CTC→CTT) | intR ← | putative integrase |
| RA | 1,428,087 | C→T | E214K (GAG→AAG) | insH5 ← | IS5 family transposase and trans‑activator |
| RA | 1,610,076 | T→G | D202A (GAT→GCT) | uxaB ← | tagaturonate reductase |
| RA | 1,610,440 | C→T | E81K (GAA→AAA) | uxaB ← | tagaturonate reductase |
| RA | 1,643,679 | A→T | L209Q (CTG→CAG) | ydfU ← | protein YdfU |
| JC JC | 1,651,851 | IS2 (–) +5 bp | intergenic (+1866/+873) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| MC JC | 1,704,350 | Δ390 bp | blr | blr | |
| RA | 1,721,136 | C→T | L38F (CTT→TTT) | ydhI → | DUF1656 domain‑containing protein YdhI |
| RA | 1,738,377 | C→T | H178H (CAC→CAT) | purR → | DNA‑binding transcriptional repressor PurR |
| RA | 1,776,715 | A→T | S377C (AGT→TGT) | ydiF → | putative acetate‑CoA transferase YdiF |
| RA | 1,856,968 | T→A | I268F (ATT→TTT) | ydjI ← | L‑glycero‑L‑galacto‑octuluronate‑1‑phosphate aldolase |
| RA | 1,894,839 | T→C | L12P (CTC→CCC) | pabB → | aminodeoxychorismate synthase subunit 1 |
| RA | 1,975,224 | G→A | A34V (GCG→GTG) | cheA ← | chemotaxis protein CheA |
| RA | 1,987,499 | C→A | intergenic (+71/+8) | ftnB → / ← yecJ | putative ferritin‑like protein/DUF2766 domain‑containing protein YecJ |
| RA | 2,003,276 | A→C | S111A (TCT→GCT) | fliC ← | flagellar filament structural protein |
| RA | 2,003,462 | C→A | A49S (GCG→TCG) | fliC ← | flagellar filament structural protein |
| RA | 2,003,470 | G→C | A46G (GCG→GGG) | fliC ← | flagellar filament structural protein |
| RA | 2,040,433 | C→A | A319D (GCC→GAC) | msrP → | protein‑L‑methionine sulfoxide reductase catalytic subunit MsrP |
| RA | 2,173,363 | Δ2 bp | intergenic (‑490/+918) | gatD ← / ← gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| RA | 2,175,991 | T→A | K111* (AAG→TAG) | gatZ ← | putative tagatose‑1,6‑bisphosphate aldolase 2 chaperone |
| RA | 2,188,087 | T→C | T110A (ACG→GCG) | yehA ← | putative fimbrial adhesin YehA |
| JC | 2,238,416 | Δ19 bp | coding (856‑874/1521 nt) | mglA ← | D‑galactose/methyl‑galactoside ABC transporter ATP binding subunit |
| MC JC | 2,263,489 | Δ3,371 bp | [fruB]–[yeiQ] | [fruB], setB, yeiW, yeiP, [yeiQ] | |
| RA | 2,302,355 | G→T | T133T (ACC→ACA) | napA ← | periplasmic nitrate reductase subunit NapA |
| RA | 2,384,808 | C→T | K305K (AAG→AAA) | yfbK ← | IPR002035/DUF3520 domain‑containing protein YfbK |
| RA | 2,410,419 | G→A | L312L (CTG→TTG) | yfbS ← | putative transporter YfbS |
| RA | 2,484,827 | C→T | L152F (CTT→TTT) | evgS → | sensor histidine kinase EvgS |
| RA | 2,700,747 | G→A | L84L (CTC→CTT) | acpS ← | holo‑[acyl‑carrier‑protein] synthase |
| RA | 2,748,396 | G→A | A145A (GCG→GCA) | ypjD → | cytochrome c assembly family protein |
| RA | 2,756,976 | G→A | R273Q (CGA→CAA) | intA → | integrase IntA |
| RA | 2,780,060 | G→A | H889H (CAC→CAT) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,792,209 | G→A | V313M (GTG→ATG) | gabD → | succinate‑semialdehyde dehydrogenase (NADP(+)) GabD |
| RA | 2,800,435 | G→A | G97D (GGT→GAT) | ygaM → | DUF883 domain‑containing protein YgaM |
| RA | 2,810,925 | G→A | G52G (GGG→GGA) | mprA → | DNA‑binding transcriptional regulator MprA |
| RA | 2,817,850 | G→A | noncoding (11/77 nt) | argQ ← | tRNA‑Arg |
| RA | 2,825,328 | G→A | S83S (TCC→TCT) | mltB ← | membrane‑bound lytic murein transglycosylase B |
| RA | 2,841,238 | G→A | M83I (ATG→ATA) | ascB → | 6‑phospho‑beta‑glucosidase AscB |
| RA | 2,863,773 | C→T | L61F (CTT→TTT) | ygbL → | putative 3‑oxo‑tetronate 4‑phosphate decarboxylase YgbL |
| RA | 2,878,077 | C→T | intergenic (+459/+492) | iap → / ← cas2 | alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2 |
| RA | 2,889,365 | C→T | K245K (AAG→AAA) | cysI ← | sulfite reductase, hemoprotein subunit |
| RA | 2,905,825 | C→T | Q39* (CAA→TAA) | ygcG → | TPM domain‑containing protein YgcG |
| JC JC | 2,913,392 | IS2 (–) +5 bp | coding (256‑260/2235 nt) | relA ← | GDP/GTP pyrophosphokinase |
| RA | 2,926,292 | C→T | intergenic (+96/‑16) | queF → / → ppnN | 7‑cyano‑7‑deazaguanine reductase/nucleotide 5'‑monophosphate nucleosidase |
| RA | 3,088,010 | 2 bp→TT | intergenic (+150/‑273) | metK → / → galP | methionine adenosyltransferase/galactose:H(+) symporter |
| RA | 3,336,411 | 2 bp→AT | coding (83‑84/1260 nt) | murA ← | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| RA | 3,367,944 | G→A | A40T (GCG→ACG) | yhcG → | DUF1016 domain‑containing protein YhcG |
| RA | 3,388,041 | T→G | T50P (ACG→CCG) | aaeB ← | aromatic carboxylic acid efflux pump subunit AaeB |
| RA | 3,399,929 | A→T | L17Q (CTG→CAG) | mreC ← | cell shape determining protein MreC |
| RA | 3,436,697 | G→A | E60E (GAG→GAA) | trkA → | NAD‑binding component of Trk potassium transporters |
| RA | 3,449,779 | G→A | S35S (AGC→AGT) | rpsC ← | 30S ribosomal subunit protein S3 |
| RA | 3,468,768 | C→T | W362* (TGG→TGA) | chiA ← | endochitinase |
| RA | 3,474,425 | T→C | K43R (AAA→AGA) | rpsL ← | 30S ribosomal subunit protein S12 |
| RA | 3,543,877 | G→A | P237P (CCG→CCA) | rpnA → | recombination‑promoting nuclease RpnA |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| RA | 3,629,921 | C→T | E228K (GAG→AAG) | yhiI ← | putative membrane fusion protein YhiI |
| RA | 3,682,515 | C→T | M311I (ATG→ATA) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| RA | 3,696,909 | G→A | G151E (GGA→GAA) | bcsE → | c‑di‑GMP‑binding protein BcsE |
| RA | 3,707,947 | C→A | intergenic (‑242/+669) | dppA ← / ← proK | dipeptide ABC transporter periplasmic binding protein/tRNA‑Pro |
| RA | 3,725,176 | T→G | E48A (GAG→GCG) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,761,230 | G→A | S7F (TCC→TTC) | selA ← | selenocysteine synthase |
| RA | 3,771,979 | G→T | intergenic (‑235/‑302) | yibI ← / → mtlA | DUF3302 domain‑containing protein YibI/mannitol‑specific PTS enzyme IICBA component |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| JC | 3,822,651 | (CAGGAT)1→2 | coding (252/2109 nt) | spoT → | bifunctional (p)ppGpp synthase/hydrolase SpoT |
| RA | 3,823,162 | C→T | H255Y (CAC→TAC) | spoT → | bifunctional (p)ppGpp synthase/hydrolase SpoT |
| RA | 3,869,637 | C→A | L87L (CTC→CTA) | cbrA → | colicin M resistance protein |
| RA | 3,878,536 | G→A | Y528Y (TAC→TAT) | gyrB ← | DNA gyrase subunit B |
| RA | 3,883,678 | G→A | P18S (CCA→TCA) | dnaA ← | chromosomal replication initiator protein DnaA |
| RA | 3,912,074 | G→A | S532F (TCC→TTC) | glmS ← | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| RA | 3,931,069 | C→T | E9K (GAA→AAA) | ravA ← | regulatory ATPase RavA |
| JC JC | 3,938,983 | IS2 (–) +5 bp | coding (757‑761/993 nt) | rbsR → | DNA‑binding transcriptional dual regulator RbsR |
| RA | 3,955,304 | C→T | R609R (CGC→CGT) | ilvD → | dihydroxy‑acid dehydratase |
| RA | 3,988,115 | C→T | D318N (GAT→AAT) | hemX ← | PF04375 family protein HemX |
| RA | 3,993,531 | T→C | R793R (CGT→CGC) | cyaA → | adenylate cyclase |
| RA | 3,996,049 | T→A | L156* (TTG→TAG) | yigA → | DUF484 domain‑containing protein YigA |
| RA | 4,011,802 | C→T | P243S (CCG→TCG) | bioP → | biotin transporter |
| RA | 4,084,903 | T→G | N307T (AAC→ACC) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,092,703 | A→G | F41L (TTC→CTC) | frvA ← | putative PTS enzyme IIA component FrvA |
| RA | 4,113,851 | G→A | H208Y (CAT→TAT) | fpr ← | flavodoxin/ferredoxin‑NADP(+) reductase |
| RA | 4,124,401 | G→T | A19E (GCA→GAA) | cytR ← | DNA‑binding transcriptional repressor CytR |
| RA | 4,143,377 | C→T | S283L (TCA→TTA) | frwC → | putative PTS enzyme IIC component FrwC |
| RA | 4,154,371 | G→A | A159A (GCC→GCT) | argE ← | acetylornithine deacetylase |
| RA | 4,161,248 | G→T | G61V (GGC→GTC) | fabR → | DNA‑binding transcriptional repressor FabR |
| RA | 4,164,123 | C→G | A162G (GCA→GGA) | btuB → | cobalamin outer membrane transporter |
| RA | 4,215,347 | T→A | intergenic (+138/‑131) | metA → / → aceB | homoserine O‑succinyltransferase/malate synthase A |
| RA | 4,223,638 | T→C | intergenic (‑10/‑190) | iclR ← / → metH | DNA‑binding transcriptional repressor IclR/cobalamin‑dependent methionine synthase |
| RA | 4,226,699 | G→A | G958R (GGG→AGG) | metH → | cobalamin‑dependent methionine synthase |
| RA | 4,282,332 | (A)5→6 | coding (744/1293 nt) | yjcF ← | pentapeptide repeat‑containing protein YjcF |
| JC JC | 4,286,247 | IS30 (+) +2 bp | coding (1124‑1125/1959 nt) | acs ← | acetyl‑CoA synthetase (AMP‑forming) |
| RA | 4,293,781 | 2 bp→AT | coding (239‑240/597 nt) | nrfG → | putative formate‑dependent nitrite reductase complex subunit NrfG |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,325,644 | C→T | S33N (AGC→AAC) | yjdN ← | PF06983 family protein YjdN |
| RA | 4,392,997 | G→A | V357V (GTC→GTT) | queG ← | epoxyqueuosine reductase |
| RA | 4,393,552 | G→A | F172F (TTC→TTT) | queG ← | epoxyqueuosine reductase |
| RA | 4,396,373 | C→T | T103T (ACC→ACT) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,396,772 | T→C | F236F (TTT→TTC) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,425,688 | C→A | H57N (CAC→AAC) | priB → | primosomal replication protein N |
| RA | 4,425,696 | C→A | N59K (AAC→AAA) | priB → | primosomal replication protein N |
| RA | 4,499,661 | T→C | intergenic (+161/‑1599) | insD6 → / → yjgZ | IS2 insertion element protein InsB/uncharacterized protein YjgZ |
| RA | 4,510,238 | T→G | intergenic (+445/+452) | insO → / ← fecE | IS911B regulator fragment/ferric citrate ABC transporter ATP binding subunit |
| RA | 4,532,409 | T→G | intergenic (‑758/+28) | sgcX ← / ← yjhP | putative endoglucanase with Zn‑dependent exopeptidase domain/putative methyltransferase YjhP |
| JC JC | 4,543,608 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (494‑499/549 nt) | fimA → | type 1 fimbriae major subunit |
| RA | 4,546,601 | C→T | I502I (ATC→ATT) | fimD → | type I fimbriae usher protein |
| RA | 4,636,925 | G→C | R77P (CGC→CCC) | creC → | sensory histidine kinase CreC |
| RA | 4,638,240 | G→A | L21L (TTG→TTA) | creD → | putative inner membrane protein CreD |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 275509 | 278399 | 2891 | 23 [0] | [8] 9 | [mmuP]–[afuC] | [mmuP],mmuM,[afuC] |
| * | * | ÷ | NC_000913 | 278424 | 372748 | 94325 | 9 [8] | [6] 29 | [afuC]–[mhpD] | [afuC],insB2,insA2,yagB,yagA,yagE,yagF,yagG,yagH,xynR,argF,argL,ykgS,insB3,insA3,yagJ,yagK,yagL,yagM,ykgV,yagN,intF,yagP,paoD,paoC,paoB,paoA,yagU,ykgJ,ecpE,ecpD,ecpC,ecpB,ecpA,matA,ykgL,ykgO,ykgM,ykgR,insE1,insF1,rclC,rclB,rclA,rclR,ykgE,ykgF,ykgG,ykgH,betA,betB,betI,betT,yahV,pdeL,yahB,yahC,yahD,yahE,yahF,yahG,yahH,yahI,yahJ,yahK,yahL,yahM,yahN,yahO,prpR,prpB,prpC,prpD,prpE,codB,codA,cynR,cynT,cynS,cynX,lacA,lacY,lacZ,lacI,mhpR,mhpA,mhpB,mhpC,[mhpD] |
| * | * | ÷ | NC_000913 | 1196292 | 1211569 | 15278 | 10 [8] | [8] 9 | [icd]–mcrA | [icd],C0293,ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,ymfN,ymfR,beeE,ymfQ,ycfK,tfaP,tfaE,pinE,mcrA |
| * | * | ÷ | NC_000913 | 1978495 | 1979270 | 776 | 24 [0] | [3] 27 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 3423825–3424233 | 3424440–3424238 | 6–616 | 9 [8] | [8] 9 | [rrlD] | [rrlD] |
| * | * | ÷ | NC_000913 | 3708423 | 3708539 | 117 | 9 [8] | [8] 9 | dppA/proK | dipeptide ABC transporter periplasmic binding protein/tRNA‑Pro |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 275508 | 0 (0.000) | 23 (0.560) | 21/466 | 0.9 | 95.8% | coding (184/1404 nt) | mmuP | S‑methyl‑L‑methionine transporter |
| ? | NC_000913 | 372749 = | 2 (0.050) | coding (635/810 nt) | mhpD | 2‑hydroxypentadienoate hydratase | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 24 (0.560) | 23/486 | 0.8 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | 1979271 = | 3 (0.070) | 24 (0.560) | 23/486 | 0.8 | 88.9% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||