mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NZ_CP022686 | 28,266 | T→G | 7.3% | V19G (GTT→GGT) | ydcV → | ABC transporter permease |
| RA | NZ_CP022686 | 182,646 | A→C | 8.6% | G68G (GGT→GGG) | malI ← | mal regulon transcriptional regulator MalI |
| RA | NZ_CP022686 | 263,831 | A→C | 10.0% | intergenic (+38/+19) | fadK → / ← ppsA | medium‑chain fatty‑acid‑‑CoA ligase/phosphoenolpyruvate synthase |
| RA | NZ_CP022686 | 298,027 | A→C | 15.9% | F60C (TTT→TGT) | chbC ← | PTS N,N'‑diacetylchitobiose transporter subunit IIC |
| RA | NZ_CP022686 | 349,123 | A→C | 11.5% | K612N (AAA→AAC) | yeaG → | protein kinase YeaG |
| RA | NZ_CP022686 | 372,512 | T→A | 6.6% | S254S (TCT→TCA) | sdaA → | L‑serine ammonia‑lyase |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| RA | NZ_CP022686 | 512,298 | A→C | 8.4% | V68G (GTT→GGT) | sdiA ← | transcriptional regulator SdiA |
| RA | NZ_CP022686 | 512,735 | G→T | 11.1% | Q250K (CAA→AAA) | yecC ← | L‑cystine ABC transporter ATP‑binding protein YecC |
| RA | NZ_CP022686 | 531,408 | A→C | 10.6% | K44N (AAA→AAC) | fliF → | flagellar basal‑body MS‑ring/collar protein FliF |
| RA | NZ_CP022686 | 556,940 | A→T | 13.8% | intergenic (+124/‑724) | zinT → / → CIW80_RS03080 | metal‑binding protein ZinT/site‑specific integrase |
| RA | NZ_CP022686 | 556,948 | A→T | 8.8% | intergenic (+132/‑716) | zinT → / → CIW80_RS03080 | metal‑binding protein ZinT/site‑specific integrase |
| RA | NZ_CP022686 | 560,880 | C→T | 100% | intergenic (+62/+53) | CIW80_RS03085 → / ← pilV | hypothetical protein/shufflon system plasmid conjugative transfer pilus tip adhesin PilV |
| RA | NZ_CP022686 | 596,637 | T→G | 10.9% | G54G (GGT→GGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,295 | T→G | 15.0% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| RA | NZ_CP022686 | 601,302 | T→G | 23.2% | R1609R (CGT→CGG) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 651,848 | A→C | 11.9% | R238R (CGT→CGG) | clbJ ← | colibactin non‑ribosomal peptide synthetase ClbJ |
| RA | NZ_CP022686 | 694,421 | G→T | 12.0% | intergenic (+181/‑15) | CIW80_RS03555 → / → CIW80_RS03560 | transposase/PfkB family carbohydrate kinase |
| RA | NZ_CP022686 | 756,115 | A→G | 100% | G181G (GGT→GGC) | galE ← | UDP‑glucose 4‑epimerase GalE |
| RA | NZ_CP022686 | 765,001 | A→T | 8.0% | Y40N (TAC→AAC) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 829,441 | C→A | 23.0% | intergenic (‑30/+197) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,452 | G→T | 14.7% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 859,943 | T→G | 14.4% | L602V (TTA→GTA) | yehM → | DUF5682 family protein |
| RA | NZ_CP022686 | 881,733 | A→C | 13.7% | intergenic (+248/+139) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 881,760 | T→G | 17.5% | intergenic (+275/+112) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 917,427:1 | +TT | 100% | intergenic (+130/‑91) | yeiP → / → yeiQ | elongation factor P‑like protein YeiP/mannitol dehydrogenase family protein |
| RA | NZ_CP022686 | 948,051 | G→T | 12.5% | intergenic (+120/‑137) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,090 | C→A | 12.3% | intergenic (+159/‑98) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,105 | A→C | 11.5% | intergenic (+174/‑83) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 1,000,431 | T→G | 21.6% | D945A (GAC→GCC) | yfaL ← | AIDA‑I family autotransporter adhesin YfaL/EhaC |
| RA | NZ_CP022686 | 1,005,042 | A→C | 7.2% | D366A (GAC→GCC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,005,073 | A→C | 8.8% | E376D (GAA→GAC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,010,174 | G→C | 5.6% | V326V (GTC→GTG) | glpT ← | glycerol‑3‑phosphate transporter |
| RA | NZ_CP022686 | 1,065,974 | G→C | 7.9% | A38G (GCA→GGA) | yfbS ← | SLC13 family permease |
| RA | NZ_CP022686 | 1,209,908 | T→G | 15.1% | D396A (GAC→GCC) | eutH ← | ethanolamine utilization protein EutH |
| RA | NZ_CP022686 | 1,213,475 | A→C | 6.7% | C422G (TGT→GGT) | eutE ← | aldehyde dehydrogenase EutE |
| RA | NZ_CP022686 | 1,213,479 | T→G | 13.1% | G420G (GGA→GGC) | eutE ← | aldehyde dehydrogenase EutE |
| RA | NZ_CP022686 | 1,242,396 | A→C | 7.7% | S111A (TCG→GCG) | dapA ← | 4‑hydroxy‑tetrahydrodipicolinate synthase |
| RA | NZ_CP022686 | 1,280,117 | T→G | 8.6% | N8H (AAC→CAC) | yfgM ← | ancillary SecYEG translocon subunit YfgM |
| RA | NZ_CP022686 | 1,308,537 | G→T | 6.4% | G32C (GGT→TGT) | yphA → | DoxX family protein |
| RA | NZ_CP022686 | 1,358,687 | T→G | 7.9% | L348V (TTA→GTA) | pssA → | CDP‑diacylglycerol‑‑serine O‑phosphatidyltransferase |
| RA | NZ_CP022686 | 1,360,724 | G→T | 12.0% | intergenic (‑59/+265) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,360,742 | C→A | 7.4% | intergenic (‑77/+247) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,366,277 | T→G | 6.5% | intergenic (‑278/+164) | CIW80_RS06740 ← / ← clpB | 16S ribosomal RNA/ATP‑dependent chaperone ClpB |
| RA | NZ_CP022686 | 1,370,559 | T→G | 9.3% | K98N (AAA→AAC) | rluD ← | 23S rRNA pseudouridine(1911/1915/1917) synthase RluD |
| RA | NZ_CP022686 | 1,371,093 | A→C | 11.6% | Y36S (TAC→TCC) | bamD → | outer membrane protein assembly factor BamD |
| RA | NZ_CP022686 | 1,410,835 | T→G | 5.4% | F193V (TTT→GTT) | proW → | glycine betaine/L‑proline ABC transporter permease ProW |
| RA | NZ_CP022686 | 1,424,198 | A→T | 5.8% | intergenic (‑34/+30) | CIW80_RS07080 ← / ← CIW80_RS07085 | tRNA‑Arg/tRNA‑Arg |
| RA | NZ_CP022686 | 1,424,347 | A→T | 6.5% | intergenic (‑43/+20) | CIW80_RS07085 ← / ← CIW80_RS07090 | tRNA‑Arg/tRNA‑Arg |
| RA | NZ_CP022686 | 1,479,607 | A→C | 11.4% | intergenic (‑16/+177) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,504,310 | G→T | 7.9% | M249I (ATG→ATT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,324 | C→A | 16.1% | P254H (CCT→CAT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,351 | A→C | 10.5% | N263T (AAC→ACC) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,355 | T→A | 11.4% | A264A (GCT→GCA) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,361 | G→T | 26.5% | V266V (GTG→GTT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,535,326 | T→G | 15.5% | V22V (GTT→GTG) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,535,362 | G→T | 17.4% | A34A (GCG→GCT) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,547,110 | G→C | 17.2% | intergenic (+22/‑12) | CIW80_RS07710 → / → CIW80_RS07715 | tRNA‑Met/tRNA‑Met |
| RA | NZ_CP022686 | 1,558,395 | A→C | 13.1% | K464N (AAA→AAC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,566,203 | A→C | 9.4% | N735T (AAC→ACC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,566,271 | A→C | 8.9% | T758P (ACC→CCC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,632,501 | T→G | 10.4% | V166G (GTT→GGT) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,633,861 | A→T | 17.9% | L248* (TTA→TAA) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,633,901 | T→G | 7.5% | T235P (ACG→CCG) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,640,925 | A→C | 17.1% | R7S (AGA→AGC) | ygfM → | molybdopterin‑dependent oxidoreductase FAD‑binding subunit |
| RA | NZ_CP022686 | 1,674,224 | T→G | 10.4% | K188N (AAA→AAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,244 | T→G | 16.6% | T182P (ACC→CCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,248 | T→G | 11.9% | Q180H (CAA→CAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,710,453 | A→C | 7.8% | intergenic (+48/‑32) | endA → / → rsmE | deoxyribonuclease I/16S rRNA (uracil(1498)‑N(3))‑methyltransferase |
| RA | NZ_CP022686 | 1,716,145 | A→C | 8.7% | T42P (ACC→CCC) | rdgB → | XTP/dITP diphosphatase |
| RA | NZ_CP022686 | 1,716,167 | A→C | 14.6% | N49T (AAC→ACC) | rdgB → | XTP/dITP diphosphatase |
| RA | NZ_CP022686 | 1,798,974 | G→T | 6.2% | G8C (GGT→TGT) | CIW80_RS08965 → | DUF932 domain‑containing protein |
| RA | NZ_CP022686 | 1,833,745 | T→G | 23.3% | N468H (AAC→CAC) | gspD ← | type II secretion system secretin GspD |
| RA | NZ_CP022686 | 1,860,077 | G→T | 14.1% | G116G (GGC→GGA) | CIW80_RS09255 ← | YtfJ family protein |
| RA | NZ_CP022686 | 1,911,581 | C→G | 8.7% | S231T (AGC→ACC) | CIW80_RS09520 ← | MurR/RpiR family transcriptional regulator |
| RA | NZ_CP022686 | 1,925,317 | T→G | 8.3% | L146R (CTG→CGG) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 1,954,923 | T→G | 20.4% | T92P (ACG→CCG) | ttdR ← | DNA‑binding transcriptional activator TtdR |
| RA | NZ_CP022686 | 1,965,173 | A→C | 8.4% | R86R (CGT→CGG) | nfeF ← | NADPH‑dependent ferric chelate reductase |
| RA | NZ_CP022686 | 2,016,153 | T→G | 6.1% | noncoding (121/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,035,513 | T→A | 5.5% | Y141F (TAT→TTT) | rsmI ← | 16S rRNA (cytidine(1402)‑2'‑O)‑methyltransferase |
| RA | NZ_CP022686 | 2,037,521 | A→C | 11.4% | T508P (ACC→CCC) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | NZ_CP022686 | 2,049,089 | T→G | 17.8% | N256T (AAC→ACC) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,061,780 | A→C | 6.5% | K383N (AAA→AAC) | argG → | argininosuccinate synthase |
| RA | NZ_CP022686 | 2,076,554 | T→G | 10.1% | intergenic (+24/‑209) | ispB → / → sfsB | octaprenyl diphosphate synthase/DNA‑binding transcriptional regulator SfsB |
| RA | NZ_CP022686 | 2,097,310 | A→C | 6.4% | T245P (ACC→CCC) | gltB → | glutamate synthase large subunit |
| RA | NZ_CP022686 | 2,110,465 | T→G | 9.5% | T10P (ACC→CCC) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,123,234 | T→A | 6.7% | Y210F (TAT→TTT) | tldD ← | metalloprotease TldD |
| RA | NZ_CP022686 | 2,130,829 | A→C | 11.8% | V237G (GTT→GGT) | mreC ← | rod shape‑determining protein MreC |
| RA | NZ_CP022686 | 2,148,115 | T→G | 11.3% | L126R (CTG→CGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,141 | T→G | 10.3% | F135V (TTC→GTC) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,159,688 | A→C | 9.2% | Y172S (TAC→TCC) | CIW80_RS10780 → | amino acid ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,172,177 | A→C | 5.8% | G87G (GGT→GGG) | smg ← | DUF494 family protein Smg |
| RA | NZ_CP022686 | 2,179,878 | T→G | 9.4% | K35T (AAG→ACG) | rplQ ← | 50S ribosomal protein L17 |
| RA | NZ_CP022686 | 2,185,071 | A→C | 5.6% | G47G (GGT→GGG) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,185,075 | A→C | 7.8% | V46G (GTT→GGT) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,188,239 | G→T | 8.7% | intergenic (‑108/+57) | rplN ← / ← rpsQ | 50S ribosomal protein L14/30S ribosomal protein S17 |
| RA | NZ_CP022686 | 2,194,054 | G→T | 9.1% | Q444K (CAA→AAA) | gspA ← | type II secretion system protein GspA |
| RA | NZ_CP022686 | 2,214,419 | T→C | 100% | K43R (AAA→AGA) | rpsL ← | 30S ribosomal protein S12 |
| RA | NZ_CP022686 | 2,320,775 | C→T | 100% | G274S (GGC→AGC) | CIW80_RS11675 ← | DNA‑processing protein DprA |
| RA | NZ_CP022686 | 2,357,291 | A→C | 12.7% | N26T (AAC→ACC) | dcrB → | phage sensitivity protein DcrB |
| RA | NZ_CP022686 | 2,386,496 | T→G | 8.8% | K417N (AAA→AAC) | prlC ← | oligopeptidase A |
| RA | NZ_CP022686 | 2,394,287 | T→G | 17.0% | N115T (AAC→ACC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,394,295 | G→T | 7.5% | I112I (ATC→ATA) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,394,302 | A→T | 11.7% | F110Y (TTC→TAC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,398,885 | A→C | 9.9% | S203R (AGC→CGC) | hutW → | heme anaerobic degradation radical SAM methyltransferase ChuW/HutW |
| RA | NZ_CP022686 | 2,398,896 | A→C | 10.8% | K206N (AAA→AAC) | hutW → | heme anaerobic degradation radical SAM methyltransferase ChuW/HutW |
| RA | NZ_CP022686 | 2,406,317 | G→T | 5.6% | I69I (ATC→ATA) | CIW80_RS12130 ← | hypothetical protein |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,433,335 | A→C | 8.5% | S1057A (TCG→GCG) | bcsC ← | cellulose synthase complex outer membrane protein BcsC |
| RA | NZ_CP022686 | 2,460,581 | A→C | 26.0% | intergenic (‑3/‑155) | yhjY ← / → tag | autotransporter outer membrane beta‑barrel domain‑containing protein/DNA‑3‑methyladenine glycosylase I |
| RA | NZ_CP022686 | 2,470,422 | T→G | 13.6% | K72N (AAA→AAC) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | NZ_CP022686 | 2,516,426 | T→A | 8.6% | G612G (GGT→GGA) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,550,305 | T→G | 6.7% | K151N (AAA→AAC) | mutM ← | bifunctional DNA‑formamidopyrimidine glycosylase/DNA‑(apurinic or apyrimidinic site) lyase |
| RA | NZ_CP022686 | 2,572,705 | A→C | 14.5% | G191G (GGT→GGG) | CIW80_RS12885 ← | ROK family protein |
| RA | NZ_CP022686 | 2,574,429 | T→G | 9.8% | N230T (AAC→ACC) | CIW80_RS12895 ← | class II fructose‑bisphosphate aldolase family protein |
| JC | NZ_CP022686 | 2,590,563 | +TTGG | 100% | coding (109/153 nt) | CIW80_RS26455 → | hypothetical protein |
| RA | NZ_CP022686 | 2,607,374 | G→T | 8.7% | S232Y (TCC→TAC) | adeQ ← | adenine permease AdeQ |
| RA | NZ_CP022686 | 2,638,855 | C→A | 8.5% | intergenic (‑170/+70) | yidB ← / ← gyrB | YidB family protein/DNA topoisomerase (ATP‑hydrolyzing) subunit B |
| RA | NZ_CP022686 | 2,717,385 | T→G | 5.2% | F96V (TTT→GTT) | ilvA → | threonine ammonia‑lyase, biosynthetic |
| RA | NZ_CP022686 | 2,736,585 | T→A | 8.6% | Y183N (TAC→AAC) ‡ | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,736,586 | A→C | 9.5% | Y183S (TAC→TCC) ‡ | rffA → | dTDP‑4‑amino‑4,6‑dideoxygalactose transaminase |
| RA | NZ_CP022686 | 2,758,168 | A→C | 7.9% | N54H (AAC→CAC) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,769,166 | C→A | 12.4% | C57F (TGC→TTC) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,780,127 | C→A | 11.6% | P683T (CCA→ACA) | metE → | 5‑methyltetrahydropteroyltriglutamate‑‑ homocysteine S‑methyltransferase |
| RA | NZ_CP022686 | 2,808,145 | T→G | 7.0% | V447G (GTG→GGG) | ubiB → | ubiquinone biosynthesis regulatory protein kinase UbiB |
| RA | NZ_CP022686 | 2,810,040 | A→C | 6.5% | N242T (AAC→ACC) | tatC → | Sec‑independent protein translocase subunit TatC |
| RA | NZ_CP022686 | 2,834,898 | A→C | 7.9% | K601N (AAA→AAC) | polA → | DNA polymerase I |
| RA | NZ_CP022686 | 2,868,740 | T→G | 24.0% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,753 | T→G | 14.1% | T18P (ACC→CCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,871,422 | T→G | 8.3% | N149T (AAC→ACC) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | NZ_CP022686 | 2,904,852 | T→G | 8.7% | T239P (ACG→CCG) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,904,856 | T→G | 6.6% | K237N (AAA→AAC) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,919,096 | A→C | 8.0% | C333G (TGT→GGT) | CIW80_RS14605 ← | hypothetical protein |
| RA | NZ_CP022686 | 2,920,417 | G→C | 8.7% | A65P (GCA→CCA) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 2,933,091 | G→T | 6.6% | R339L (CGT→CTT) | frwC → | PTS fructose transporter subunit EIIC |
| RA | NZ_CP022686 | 2,937,239 | T→G | 5.9% | T209P (ACG→CCG) | yijO ← | AraC family transcriptional regulator |
| RA | NZ_CP022686 | 2,989,627 | T→G | 10.5% | Q39H (CAA→CAC) | thiC ← | phosphomethylpyrimidine synthase ThiC |
| RA | NZ_CP022686 | 2,992,831 | A→C | 10.3% | K133T (AAA→ACA) | nfi → | deoxyribonuclease V |
| RA | NZ_CP022686 | 3,020,229 | T→G | 11.5% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,070,986 | T→G | 7.9% | G53G (GGT→GGG) | CIW80_RS15290 → | 2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 3,086,834 | A→C | 10.5% | F708V (TTT→GTT) | uvrA ← | excinuclease ABC subunit UvrA |
| RA | NZ_CP022686 | 3,090,033 | G→T | 6.0% | R32S (CGT→AGT) | yjcB ← | YjcB family protein |
| RA | NZ_CP022686 | 3,136,923 | A→C | 12.1% | S167A (TCG→GCG) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,136,935 | T→G | 8.5% | S163R (AGC→CGC) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,136,940 | T→G | 11.9% | D161A (GAC→GCC) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,142,411 | T→G | 5.2% | D59A (GAC→GCC) | phnH ← | phosphonate C‑P lyase system protein PhnH |
| RA | NZ_CP022686 | 3,184,639 | A→C | 7.2% | intergenic (‑86/+30) | cutA ← / ← dcuA | divalent cation tolerance protein CutA/anaerobic C4‑dicarboxylate transporter DcuA |
| RA | NZ_CP022686 | 3,184,651 | A→C | 9.6% | intergenic (‑98/+18) | cutA ← / ← dcuA | divalent cation tolerance protein CutA/anaerobic C4‑dicarboxylate transporter DcuA |
| JC | NZ_CP022686 | 3,196,873 | +GCGTAATCGGTT | 100% | coding (944/1122 nt) | ampC ← | BlaEC family class C beta‑lactamase |
| RA | NZ_CP022686 | 3,200,595 | A→C | 6.0% | V199G (GTT→GGT) | frdA ← | fumarate reductase (quinol) flavoprotein subunit |
| RA | NZ_CP022686 | 3,218,260 | T→G | 8.1% | L233R (CTT→CGT) | miaA → | tRNA (adenosine(37)‑N6)‑dimethylallyltransferase MiaA |
| RA | NZ_CP022686 | 3,265,096 | G→T | 13.5% | A73E (GCA→GAA) | ytfJ ← | YtfJ family protein |
| RA | NZ_CP022686 | 3,281,004 | T→G | 12.1% | F75V (TTT→GTT) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,334,291 | C→A | 7.1% | G250C (GGT→TGT) | fecD ← | Fe(3+) dicitrate ABC transporter permease subunit FecD |
| RA | NZ_CP022686 | 3,348,357 | T→G | 8.4% | intergenic (‑173/‑27) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,348,393 | C→A | 5.1% | R4S (CGC→AGC) | CIW80_RS26495 → | hypothetical protein |
| RA | NZ_CP022686 | 3,387,644 | A→C | 9.7% | L222R (CTG→CGG) | sgcQ ← | BtpA family protein SgcQ |
| RA | NZ_CP022686 | 3,390,671 | T→G | 7.4% | K124N (AAA→AAC) | sgcX ← | M42 family metallopeptidase |
| RA | NZ_CP022686 | 3,411,278 | C→A | 6.9% | S93Y (TCC→TAC) | fimH → | type 1 fimbria D‑mannose specific adhesin FimH |
| RA | NZ_CP022686 | 3,424,795 | A→C | 100% | intergenic (‑41/+27) | yjiJ ← / ← yjiK | MFS transporter/YjiK family protein |
| RA | NZ_CP022686 | 3,461,215 | A→T | 11.9% | intergenic (‑24/+11) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,218 | G→C | 13.4% | intergenic (‑27/+8) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,229 | T→G | 19.1% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,504,054 | T→G | 7.9% | V204G (GTT→GGT) | tal → | transaldolase |
| MC JC | NZ_CP022686 | 3,559,837 | Δ2,343 bp | 100% | coding (10‑2352/2352 nt) | polB ← | DNA polymerase II |
| RA | NZ_CP022686 | 3,604,564 | G→T | 14.2% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,661,518 | C→A | 12.4% | C9F (TGC→TTC) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,661,525 | T→A | 6.7% | N7Y (AAT→TAT) | pcnB ← | polynucleotide adenylyltransferase PcnB |
| RA | NZ_CP022686 | 3,703,648 | A→C | 7.6% | T120P (ACG→CCG) | fabZ → | 3‑hydroxyacyl‑ACP dehydratase FabZ |
| RA | NZ_CP022686 | 3,734,367 | T→G | 23.4% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,734,380 | T→G | 12.7% | L229R (CTC→CGC) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,776,865 | C→A | 6.0% | L123M (CTG→ATG) | CIW80_RS18945 → | inovirus‑type Gp2 protein |
| RA | NZ_CP022686 | 3,792,805 | A→G | 100% | Y421C (TAC→TGC) | fucP → | L‑fucose:H+ symporter permease |
| RA | NZ_CP022686 | 3,797,481 | T→G | 17.6% | L130V (TTA→GTA) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,806,228 | T→A | 6.7% | N1573K (AAT→AAA) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| RA | NZ_CP022686 | 3,806,236 | G→T | 9.2% | R1576I (AGA→ATA) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| RA | NZ_CP022686 | 3,806,262 | G→T | 9.0% | D1585Y (GAT→TAT) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| MC JC | NZ_CP022686 | 3,844,426 | Δ1,036 bp | 100% | coding (2‑1037/1056 nt) | dinB → | DNA polymerase IV |
| RA | NZ_CP022686 | 3,868,846 | T→G | 11.1% | T383P (ACG→CCG) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,895,516 | A→C | 9.1% | intergenic (‑122/+62) | CIW80_RS19510 ← / ← CIW80_RS19515 | protein YkgH/autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 3,895,534 | T→G | 8.8% | intergenic (‑140/+44) | CIW80_RS19510 ← / ← CIW80_RS19515 | protein YkgH/autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 3,914,747 | A→C | 9.3% | D132A (GAC→GCC) | yahG → | DUF1116 domain‑containing protein |
| RA | NZ_CP022686 | 3,925,289 | A→C | 14.3% | N156T (AAC→ACC) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,928,345 | T→G | 10.5% | F277V (TTC→GTC) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,928,369 | T→G | 8.7% | W285G (TGG→GGG) | prpE → | propionate‑‑CoA ligase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 12.2% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,940,685 | G→C | 7.7% | S321C (TCC→TGC) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,940,724 | A→C | 12.7% | V308G (GTA→GGA) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,949,969 | T→G | 8.6% | D141A (GAC→GCC) | hemB ← | porphobilinogen synthase |
| RA | NZ_CP022686 | 3,950,011 | T→G | 6.1% | H127P (CAC→CCC) | hemB ← | porphobilinogen synthase |
| RA | NZ_CP022686 | 4,004,135 | T→G | 6.8% | R29R (CGT→CGG) | yajQ → | nucleotide binding protein YajQ |
| RA | NZ_CP022686 | 4,014,271 | G→T | 15.5% | intergenic (+117/‑227) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,018,267 | T→G | 5.5% | R5R (CGT→CGG) | lon → | endopeptidase La |
| RA | NZ_CP022686 | 4,032,292 | A→C | 14.9% | E106D (GAA→GAC) | glnK → | P‑II family nitrogen regulator |
| RA | NZ_CP022686 | 4,041,478 | A→C | 5.9% | V768G (GTG→GGG) | acrB ← | efflux RND transporter permease AcrB |
| RA | NZ_CP022686 | 4,052,690 | A→C | 5.3% | T408P (ACC→CCC) | dnaX → | DNA polymerase III subunit gamma/tau |
| RA | NZ_CP022686 | 4,056,962 | C→A | 14.9% | F137L (TTC→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,133,839 | T→G | 11.8% | K117T (AAA→ACA) | ybdF ← | MmcQ/YjbR family DNA‑binding protein |
| RA | NZ_CP022686 | 4,331,751 | T→G | 13.1% | T352P (ACG→CCG) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,331,929 | C→A | 13.9% | M292I (ATG→ATT) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,368,341 | T→G | 12.2% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,372 | T→G | 8.9% | S37R (AGC→CGC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,440,324 | C→A | 15.0% | P794Q (CCG→CAG) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,440,334 | A→C | 20.2% | Q797H (CAA→CAC) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,440,351 | T→A | 11.8% | V803D (GTT→GAT) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,461,732 | T→G | 9.8% | intergenic (+86/‑84) | aroA → / → ycaL | 3‑phosphoshikimate 1‑carboxyvinyltransferase/metallopeptidase YcaL |
| RA | NZ_CP022686 | 4,485,614 | T→G | 11.3% | F139V (TTT→GTT) | gloC → | hydroxyacylglutathione hydrolase GloC |
| RA | NZ_CP022686 | 4,571,414 | T→G | 8.8% | P67P (CCA→CCC) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,571,417 | T→G | 9.9% | A66A (GCA→GCC) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,632,182 | T→G | 9.9% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,632,224 | T→G | 5.7% | C290W (TGT→TGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,678,041 | A→C | 19.7% | intergenic (+39/‑82) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,678,047 | A→C | 23.5% | intergenic (+45/‑76) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,764,877 | T→G | 13.3% | intergenic (‑57/‑204) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,764,904 | G→T | 7.6% | intergenic (‑84/‑177) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,809,506 | T→G | 8.5% | V72G (GTT→GGT) | CIW80_RS24260 → | head‑tail joining protein |
| RA | NZ_CP022686 | 4,814,981 | T→G | 6.4% | W68G (TGG→GGG) | CIW80_RS24295 → | phage tail protein |
| RA | NZ_CP022686 | 4,815,047 | T→G | 6.1% | S90A (TCG→GCG) | CIW80_RS24295 → | phage tail protein |
| MC JC | NZ_CP022686 | 4,844,868 | Δ1,662 bp | 100% | [umuD]–[umuC] | [umuD], [umuC] | |
| RA | NZ_CP022686 | 4,870,912 | Δ1 bp | 100% | intergenic (‑108/‑120) | dhaK ← / → dhaR | dihydroxyacetone kinase subunit DhaK/dihydroxyacetone kinase operon transcriptional regulator DhaR |
| RA | NZ_CP022686 | 4,905,221 | T→G | 19.4% | L116R (CTT→CGT) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,910,213 | A→C | 9.0% | F48V (TTT→GTT) | purU ← | formyltetrahydrofolate deformylase |
| RA | NZ_CP022686 | 4,918,837 | T→G | 5.9% | K390N (AAA→AAC) | adhE ← | bifunctional acetaldehyde‑CoA/alcohol dehydrogenase |
| RA | NZ_CP022686 | 4,943,295 | T→G | 7.1% | K5N (AAA→AAC) | trpE ← | anthranilate synthase component I |
| RA | NZ_CP022686 | 4,951,545 | A→C | 11.5% | S47R (AGT→CGT) | topA → | type I DNA topoisomerase |
| RA | NZ_CP022686 | 5,001,164 | A→C | 10.8% | N163T (AAC→ACC) | ompG → | monomeric porin OmpG |
| RA | NZ_CP022686 | 5,042,304 | T→G | 11.3% | N645K (AAT→AAG) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,416 | G→C | 12.5% | S1016T (AGC→ACC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | pHH‑29_RBS | 1,534 | G→A | 15.1% | W12* (TGG→TGA) | Aldafermin (NGM282) → | |
| JC | pHH‑29_RBS | 1,669 | (GCGGTCAATCTGCCCACAGCTTATTAGAAATTAAA)1→2 | 55.1% | coding (171/570 nt) | Aldafermin (NGM282) → | |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_MW240712 | 357–2618 | 3068–2957 | 340–2712 | 9186 [9139] | [9086] 10134 | [JNG15_RS00005]–mobA | [JNG15_RS00005],JNG15_RS00010,JNG15_RS00015,mobA |
| * | * | ÷ | pHH‑29_RBS | 2773–2894 | 5510–3245 | 352–2738 | 6174 [6132] | [5205] 6149 | putative HTH domain protein (MarR‑like)–hypothetical protein | putative HTH domain protein (MarR‑like),putative HTH domain protein,uncharacterized protein,hypothetical protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP022686 | 262466 = | 1 (0.000) | 227 (1.020) | 74/250 | NT | 99.6% | coding (320/1647 nt) | fadK | medium‑chain fatty‑acid‑‑CoA ligase |
| ? | NZ_CP022686 | = 1524130 | NA (NA) | intergenic (+8/+232) | CIW80_RS07590/syd | IS3‑like element ISEc52 family transposase/SecY‑interacting protein | |||||
| * | ? | NZ_CP022686 | = 262468 | 1 (0.000) | 209 (0.940) | 78/250 | NT | 99.5% | coding (322/1647 nt) | fadK | medium‑chain fatty‑acid‑‑CoA ligase |
| ? | NZ_CP022686 | = 1761697 | NA (NA) | intergenic (‑72/‑70) | CIW80_RS08710/CIW80_RS08720 | IS3‑like element ISEc52 family transposase/IS3‑like element IS600 family transposase | |||||
| * | ? | NZ_CP022686 | 1522881 = | NA (NA) | 1841 (0.380) | 179/250 | NT | 21.3% | intergenic (‑394/‑72) | yqcC/CIW80_RS07590 | YqcC family protein/IS3‑like element ISEc52 family transposase |
| ? | pHH‑29_RBS | 1521 = | 6794 (0.730) | coding (23/570 nt) | Aldafermin (NGM282) | ||||||
| * | ? | NZ_CP022686 | 1760448 = | NA (NA) | 2219 (0.460) | 206/250 | NT | 24.9% | coding (1099/1101 nt) | CIW80_RS08705 | IS30‑like element IS30 family transposase |
| ? | pHH‑29_RBS | = 1523 | 6693 (0.710) | coding (25/570 nt) | Aldafermin (NGM282) | ||||||