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 | 162,405 | T→G | 10.0% | F46V (TTT→GTT) | ydgH → | DUF1471 family protein YdgH |
| RA | NZ_CP022686 | 193,743 | T→G | 7.9% | L309V (TTA→GTA) | rsxD → | electron transport complex subunit RsxD |
| RA | NZ_CP022686 | 238,317 | G→T | 16.8% | L88I (CTT→ATT) | sufE ← | cysteine desulfuration protein SufE |
| RA | NZ_CP022686 | 340,516 | A→C | 13.1% | F31V (TTT→GTT) | ydjK ← | MFS transporter |
| RA | NZ_CP022686 | 349,106 | A→C | 12.2% | T607P (ACC→CCC) | yeaG → | protein kinase YeaG |
| RA | NZ_CP022686 | 350,056 | A→C | 13.7% | K241T (AAA→ACA) | yeaH → | YeaH/YhbH family protein |
| RA | NZ_CP022686 | 360,227 | T→G | 15.7% | T35P (ACG→CCG) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 360,256 | C→A | 22.4% | G25V (GGA→GTA) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | NZ_CP022686 | 364,775 | C→A | 10.8% | E193* (GAA→TAA) | yeaY ← | Slp family lipoprotein YeaY |
| RA | NZ_CP022686 | 372,574 | A→C | 16.1% | N275T (AAC→ACC) | sdaA → | L‑serine ammonia‑lyase |
| RA | NZ_CP022686 | 377,274 | A→C | 14.3% | K136N (AAA→AAC) | manX → | PTS mannose transporter subunit IIAB |
| RA | NZ_CP022686 | 379,587 | C→G | 5.8% | intergenic (+22/‑33) | manZ → / → yobD | PTS mannose transporter subunit IID/DUF986 family protein |
| RA | NZ_CP022686 | 402,874 | A→C | 6.3% | pseudogene (785/2061 nt) | ptrB ← | oligopeptidase B |
| RA | NZ_CP022686 | 457,894 | Δ1 bp | 100% | pseudogene (288/997 nt) | CIW80_RS02445 ← | DUF968 domain‑containing protein |
| RA | NZ_CP022686 | 556,948 | A→T | 14.9% | 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 | 601,295 | T→G | 17.7% | V1607G (GTC→GGC) | irp1 → | yersiniabactin polyketide synthase HMWP1 |
| MC JC | NZ_CP022686 | 628,478 | Δ1,286 bp | 100% | [clbP] | [clbP] | |
| RA | NZ_CP022686 | 636,727 | A→C | 7.5% | L448V (TTG→GTG) | clbM ← | precolibactin export MATE transporter ClbM |
| RA | NZ_CP022686 | 651,848 | A→C | 14.8% | R238R (CGT→CGG) | clbJ ← | colibactin non‑ribosomal peptide synthetase ClbJ |
| RA | NZ_CP022686 | 693,568 | G→T | 8.5% | intergenic (+134/‑334) | CIW80_RS03550 → / → CIW80_RS03555 | YaiO family outer membrane beta‑barrel protein/transposase |
| RA | NZ_CP022686 | 694,391 | C→A | 12.6% | intergenic (+151/‑45) | 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 | 764,997 | T→G | 11.6% | N41T (AAC→ACC) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 765,024 | C→G | 8.6% | R32P (CGA→CCA) | wcaM ← | colanic acid biosynthesis protein WcaM |
| RA | NZ_CP022686 | 794,460 | C→T | 100% | A568V (GCG→GTG) | dgcE → | diguanylate cyclase |
| RA | NZ_CP022686 | 829,435 | C→A | 23.7% | intergenic (‑24/+203) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,452 | G→T | 18.1% | intergenic (‑41/+186) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,467 | C→A | 21.3% | intergenic (‑56/+171) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 829,472 | G→T | 13.1% | intergenic (‑61/+166) | gatY ← / ← fbaB | tagatose‑bisphosphate aldolase subunit GatY/class I fructose‑bisphosphate aldolase |
| RA | NZ_CP022686 | 857,274 | T→G | 8.2% | G78G (GGT→GGG) | yehL → | MoxR family ATPase |
| RA | NZ_CP022686 | 881,733 | A→C | 12.1% | intergenic (+248/+139) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 881,739 | A→C | 17.3% | intergenic (+254/+133) | yohP → / ← dusC | protein YohP/tRNA dihydrouridine(16) synthase DusC |
| RA | NZ_CP022686 | 896,350 | G→T | 11.5% | E2* (GAA→TAA) | yeiG → | S‑formylglutathione hydrolase |
| 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 | 11.6% | intergenic (+120/‑137) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 948,090 | C→A | 12.9% | intergenic (+159/‑98) | CIW80_RS04855 → / → CIW80_RS04860 | terminase small subunit/hypothetical protein |
| RA | NZ_CP022686 | 954,516 | A→C | 9.8% | L41V (TTG→GTG) | ccmF ← | cytochrome c‑type biogenesis heme lyase CcmF |
| RA | NZ_CP022686 | 957,112 | T→G | 10.1% | T89P (ACC→CCC) | ccmA ← | cytochrome c biogenesis heme‑transporting ATPase CcmA |
| RA | NZ_CP022686 | 1,005,073 | A→C | 8.8% | E376D (GAA→GAC) | nrdA → | ribonucleoside‑diphosphate reductase subunit alpha |
| RA | NZ_CP022686 | 1,065,978 | A→C | 8.8% | F37V (TTT→GTT) | yfbS ← | SLC13 family permease |
| RA | NZ_CP022686 | 1,065,997 | A→C | 12.4% | A30A (GCT→GCG) | yfbS ← | SLC13 family permease |
| RA | NZ_CP022686 | 1,100,907 | T→G | 16.0% | E199D (GAA→GAC) | aroC ← | chorismate synthase |
| RA | NZ_CP022686 | 1,174,272 | A→C | 13.7% | intergenic (+1/‑43) | CIW80_RS05855 → / → CIW80_RS05860 | tRNA‑Val/tRNA‑Val |
| RA | NZ_CP022686 | 1,249,402 | G→C | 5.9% | intergenic (‑49/+37) | uraA ← / ← upp | uracil permease/uracil phosphoribosyltransferase |
| RA | NZ_CP022686 | 1,280,117 | T→G | 7.1% | N8H (AAC→CAC) | yfgM ← | ancillary SecYEG translocon subunit YfgM |
| RA | NZ_CP022686 | 1,285,186 | G→C | 7.7% | intergenic (‑54/+96) | rlmN ← / ← ndk | bifunctional tRNA (adenosine(37)‑C2)‑methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN/nucleoside‑diphosphate kinase |
| RA | NZ_CP022686 | 1,360,724 | G→T | 11.9% | intergenic (‑59/+265) | kgtP ← / ← rrf | alpha‑ketoglutarate permease/5S ribosomal RNA |
| RA | NZ_CP022686 | 1,371,081 | C→A | 23.2% | P32Q (CCA→CAA) | bamD → | outer membrane protein assembly factor BamD |
| RA | NZ_CP022686 | 1,383,405 | T→G | 5.8% | F240V (TTT→GTT) | ypjD → | inner membrane protein YpjD |
| RA | NZ_CP022686 | 1,424,342 | C→G | 7.2% | intergenic (‑38/+25) | CIW80_RS07085 ← / ← CIW80_RS07090 | tRNA‑Arg/tRNA‑Arg |
| RA | NZ_CP022686 | 1,464,955 | G→T | 6.5% | E158* (GAA→TAA) | pphB → | protein‑serine/threonine phosphatase |
| RA | NZ_CP022686 | 1,479,607 | A→C | 11.5% | intergenic (‑16/+177) | ftsB ← / ← ygbE | cell division protein FtsB/DUF3561 family protein |
| RA | NZ_CP022686 | 1,500,012 | C→A | 7.6% | P257T (CCG→ACG) | ygcE → | FGGY‑family carbohydrate kinase |
| RA | NZ_CP022686 | 1,504,298 | A→T | 7.7% | V245V (GTA→GTT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,328 | G→T | 14.6% | M255I (ATG→ATT) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,351 | A→C | 11.0% | N263T (AAC→ACC) | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,353 | G→C | 6.9% | A264P (GCT→CCT) ‡ | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,504,355 | T→A | 8.7% | A264A (GCT→GCA) ‡ | CIW80_RS07520 → | YgcG family protein |
| RA | NZ_CP022686 | 1,535,307 | A→C | 9.4% | D16A (GAC→GCC) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,535,353 | G→T | 28.7% | M31I (ATG→ATT) | fucI → | L‑fucose isomerase |
| RA | NZ_CP022686 | 1,558,391 | T→A | 9.3% | V463E (GTA→GAA) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,558,395 | A→C | 10.0% | K464N (AAA→AAC) | vgrG → | type VI secretion system Vgr family protein |
| RA | NZ_CP022686 | 1,564,287 | G→T | 5.5% | T96T (ACG→ACT) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,564,569 | A→C | 6.4% | K190N (AAA→AAC) | CIW80_RS07780 → | ImcF‑related family protein |
| RA | NZ_CP022686 | 1,625,489 | G→T | 5.5% | Q281K (CAA→AAA) | ygeV ← | sigma‑54‑dependent Fis family transcriptional regulator |
| RA | NZ_CP022686 | 1,632,480 | T→G | 8.2% | V159G (GTC→GGC) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,632,486 | C→G | 6.2% | A161G (GCT→GGT) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,632,501 | T→G | 11.9% | V166G (GTT→GGT) | arcC → | carbamate kinase |
| RA | NZ_CP022686 | 1,633,901 | T→G | 8.2% | T235P (ACG→CCG) | yqeB ← | selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | NZ_CP022686 | 1,674,224 | T→G | 15.0% | K188N (AAA→AAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,231 | A→T | 13.1% | V186E (GTA→GAA) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,244 | T→G | 9.0% | T182P (ACC→CCC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,674,248 | T→G | 11.0% | Q180H (CAA→CAC) | ygfB ← | UPF0149 family protein YgfB |
| RA | NZ_CP022686 | 1,705,975 | A→T | 8.8% | intergenic (‑585/‑70) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,706,023 | T→A | 8.4% | intergenic (‑633/‑22) | yqgB ← / → metK | acid stress response protein YqgB/methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,706,047 | G→T | 10.6% | M1M (ATG→ATT) † | metK → | methionine adenosyltransferase |
| RA | NZ_CP022686 | 1,833,745 | T→G | 19.4% | N468H (AAC→CAC) | gspD ← | type II secretion system secretin GspD |
| RA | NZ_CP022686 | 1,843,277 | A→C | 7.1% | F339V (TTT→GTT) | glcA ← | glycolate permease GlcA |
| RA | NZ_CP022686 | 1,857,686 | T→G | 5.9% | intergenic (+34/+1) | CIW80_RS09240 → / ← lptG | aminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme/LPS export ABC transporter permease LptG |
| RA | NZ_CP022686 | 1,860,077 | G→T | 14.9% | G116G (GGC→GGA) | CIW80_RS09255 ← | YtfJ family protein |
| RA | NZ_CP022686 | 1,911,602 | T→G | 9.1% | N224T (AAC→ACC) | CIW80_RS09520 ← | MurR/RpiR family transcriptional regulator |
| RA | NZ_CP022686 | 1,925,332 | A→C | 8.5% | N151T (AAC→ACC) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 1,925,365 | A→C | 6.9% | D162A (GAC→GCC) | ygiB → | DUF1190 family protein |
| RA | NZ_CP022686 | 1,954,923 | T→G | 16.5% | T92P (ACG→CCG) | ttdR ← | DNA‑binding transcriptional activator TtdR |
| RA | NZ_CP022686 | 2,016,160 | T→G | 7.7% | noncoding (114/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,016,175 | T→G | 6.1% | noncoding (99/377 nt) | rnpB ← | RNase P RNA component class A |
| RA | NZ_CP022686 | 2,037,521 | A→C | 10.9% | T508P (ACC→CCC) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | NZ_CP022686 | 2,049,094 | G→T | 8.7% | T254T (ACC→ACA) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | NZ_CP022686 | 2,056,168 | A→C | 9.6% | G614G (GGT→GGG) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,056,180 | A→C | 5.3% | R610R (CGT→CGG) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,056,187 | G→C | 9.8% | A608G (GCA→GGA) | infB ← | translation initiation factor IF‑2 |
| RA | NZ_CP022686 | 2,076,554 | T→G | 12.5% | intergenic (+24/‑209) | ispB → / → sfsB | octaprenyl diphosphate synthase/DNA‑binding transcriptional regulator SfsB |
| RA | NZ_CP022686 | 2,110,481 | A→T | 6.6% | F4L (TTT→TTA) | rplM ← | 50S ribosomal protein L13 |
| RA | NZ_CP022686 | 2,148,115 | T→G | 10.5% | L126R (CTG→CGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,122 | T→G | 12.9% | S128R (AGT→AGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,136 | T→G | 13.8% | V133G (GTT→GGT) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,148,176 | T→G | 7.5% | G146G (GGT→GGG) | panF → | sodium/pantothenate symporter |
| RA | NZ_CP022686 | 2,159,688 | A→C | 7.4% | Y172S (TAC→TCC) | CIW80_RS10780 → | amino acid ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,179,907 | T→A | 7.3% | A25A (GCA→GCT) | rplQ ← | 50S ribosomal protein L17 |
| RA | NZ_CP022686 | 2,184,330 | G→T | 9.6% | F64L (TTC→TTA) | rplO ← | 50S ribosomal protein L15 |
| RA | NZ_CP022686 | 2,185,063 | T→A | 6.0% | Y50F (TAC→TTC) | rpsE ← | 30S ribosomal protein S5 |
| RA | NZ_CP022686 | 2,214,419 | T→C | 100% | K43R (AAA→AGA) | rpsL ← | 30S ribosomal protein S12 |
| RA | NZ_CP022686 | 2,215,215 | A→C | 6.1% | F38V (TTC→GTC) | tusC ← | sulfurtransferase complex subunit TusC |
| RA | NZ_CP022686 | 2,226,139 | A→C | 6.2% | D9A (GAC→GCC) | crp → | cAMP‑activated global transcriptional regulator CRP |
| RA | NZ_CP022686 | 2,250,454 | A→C | 7.8% | S40A (TCG→GCG) | dam ← | adenine‑specific DNA‑methyltransferase |
| RA | NZ_CP022686 | 2,320,775 | C→T | 100% | G274S (GGC→AGC) | CIW80_RS11675 ← | DNA‑processing protein DprA |
| RA | NZ_CP022686 | 2,353,173 | T→G | 7.8% | L108V (TTG→GTG) | yhhN → | lysoplasmalogenase |
| RA | NZ_CP022686 | 2,357,324 | A→C | 15.4% | N37T (AAC→ACC) | dcrB → | phage sensitivity protein DcrB |
| RA | NZ_CP022686 | 2,361,489 | T→G | 14.1% | V188G (GTT→GGT) | nikA → | nickel ABC transporter substrate‑binding protein |
| RA | NZ_CP022686 | 2,386,496 | T→G | 6.8% | K417N (AAA→AAC) | prlC ← | oligopeptidase A |
| RA | NZ_CP022686 | 2,393,013 | T→G | 5.2% | intergenic (+151/‑2) | slp → / → dctR | outer membrane lipoprotein Slp/LuxR C‑terminal‑related transcriptional regulator |
| RA | NZ_CP022686 | 2,394,287 | T→G | 13.9% | N115T (AAC→ACC) | chuS ← | hematinate‑forming heme oxygenase ChuS |
| RA | NZ_CP022686 | 2,408,861 | Δ1 bp | 100% | pseudogene (1097/3115 nt) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | NZ_CP022686 | 2,443,289 | A→C | 16.1% | V9V (GTT→GTG) | bcsQ ← | cellulose biosynthesis protein BcsQ |
| RA | NZ_CP022686 | 2,460,526 | A→C | 15.8% | V18G (GTG→GGG) | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,460,535 | A→C | 8.4% | L15R (CTT→CGT) | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,460,555 | A→C | 7.1% | G8G (GGT→GGG) | yhjY ← | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 2,470,422 | T→G | 8.6% | K72N (AAA→AAC) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | NZ_CP022686 | 2,516,216 | T→C | 7.2% | S542S (TCT→TCC) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,516,426 | T→A | 10.2% | G612G (GGT→GGA) | upaG → | trimeric autotransporter adhesin UpaG |
| RA | NZ_CP022686 | 2,546,394 | A→C | 9.2% | V95G (GTT→GGT) | waaG ← | glycosyltransferase family 4 protein |
| RA | NZ_CP022686 | 2,550,305 | T→G | 5.6% | K151N (AAA→AAC) | mutM ← | bifunctional DNA‑formamidopyrimidine glycosylase/DNA‑(apurinic or apyrimidinic site) lyase |
| JC | NZ_CP022686 | 2,590,563 | +TTGG | 100% | coding (109/153 nt) | CIW80_RS26455 → | hypothetical protein |
| RA | NZ_CP022686 | 2,624,291 | G→T | 8.6% | S140Y (TCC→TAC) | yidK ← | solute:sodium symporter family transporter |
| RA | NZ_CP022686 | 2,638,855 | C→A | 7.8% | intergenic (‑170/+70) | yidB ← / ← gyrB | YidB family protein/DNA topoisomerase (ATP‑hydrolyzing) subunit B |
| RA | NZ_CP022686 | 2,743,563 | T→G | 12.6% | noncoding (65/87 nt) | CIW80_RS13750 → | tRNA‑Leu |
| RA | NZ_CP022686 | 2,758,153 | A→C | 7.7% | T49P (ACG→CCG) | yifL → | lipoprotein |
| RA | NZ_CP022686 | 2,769,166 | C→A | 11.1% | C57F (TGC→TTC) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,769,186 | C→A | 9.1% | M50I (ATG→ATT) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,769,196 | A→C | 15.5% | F47C (TTT→TGT) | rarD ← | EamA family transporter RarD |
| RA | NZ_CP022686 | 2,801,817 | T→G | 6.6% | Y32S (TAC→TCC) | CIW80_RS14030 ← | 2‑dehydro‑3‑deoxy‑6‑phosphogalactonate aldolase |
| RA | NZ_CP022686 | 2,808,131 | T→G | 7.6% | G442G (GGT→GGG) | ubiB → | ubiquinone biosynthesis regulatory protein kinase UbiB |
| RA | NZ_CP022686 | 2,808,135 | C→A | 12.5% | P444T (CCT→ACT) | ubiB → | ubiquinone biosynthesis regulatory protein kinase UbiB |
| RA | NZ_CP022686 | 2,834,886 | A→C | 6.8% | K597N (AAA→AAC) | polA → | DNA polymerase I |
| RA | NZ_CP022686 | 2,868,740 | T→G | 24.3% | Q22P (CAG→CCG) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,868,753 | T→G | 20.6% | T18P (ACC→CCC) | fdoH ← | formate dehydrogenase O subunit beta |
| RA | NZ_CP022686 | 2,871,422 | T→G | 7.2% | N149T (AAC→ACC) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | NZ_CP022686 | 2,904,852 | T→G | 6.2% | T239P (ACG→CCG) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,904,856 | T→G | 6.5% | K237N (AAA→AAC) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,904,915 | T→G | 5.7% | T218P (ACC→CCC) | ftsN ← | cell division protein FtsN |
| RA | NZ_CP022686 | 2,920,408 | C→A | 5.4% | Q62K (CAA→AAA) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 2,920,418 | C→A | 8.3% | A65E (GCA→GAA) | CIW80_RS14610 → | bifunctional UDP‑sugar hydrolase/5'‑nucleotidase |
| RA | NZ_CP022686 | 2,994,696 | C→G | 7.8% | H163D (CAT→GAT) | yjaH → | DUF1481 domain‑containing protein |
| RA | NZ_CP022686 | 3,017,611 | A→C | 7.6% | T836P (ACC→CCC) | metH → | methionine synthase |
| RA | NZ_CP022686 | 3,017,622 | A→C | 13.9% | K839N (AAA→AAC) | metH → | methionine synthase |
| RA | NZ_CP022686 | 3,020,229 | T→G | 10.0% | V133G (GTC→GGC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,020,414 | A→C | 5.8% | T195P (ACC→CCC) | yjbB → | Na/Pi cotransporter family protein |
| RA | NZ_CP022686 | 3,062,555 | G→T | 8.6% | I219I (ATC→ATA) | CIW80_RS15250 ← | acyl CoA:acetate/3‑ketoacid CoA transferase |
| RA | NZ_CP022686 | 3,066,354 | T→G | 5.7% | K134N (AAA→AAC) | CIW80_RS15265 ← | hypothetical protein |
| RA | NZ_CP022686 | 3,136,923 | A→C | 12.1% | S167A (TCG→GCG) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,136,940 | T→G | 15.3% | D161A (GAC→GCC) | phnN ← | ribose 1,5‑bisphosphokinase |
| RA | NZ_CP022686 | 3,184,651 | A→C | 8.9% | 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 | 3,210,871 | G→T | 8.7% | intergenic (+7/‑29) | CIW80_RS15980 → / → CIW80_RS15985 | tRNA‑Gly/tRNA‑Gly |
| RA | NZ_CP022686 | 3,265,084 | T→G | 11.6% | N77T (AAC→ACC) | ytfJ ← | YtfJ family protein |
| RA | NZ_CP022686 | 3,265,096 | G→T | 12.0% | A73E (GCA→GAA) | ytfJ ← | YtfJ family protein |
| RA | NZ_CP022686 | 3,278,003 | G→T | 18.0% | E281D (GAG→GAT) | ytfQ → | galactofuranose ABC transporter substrate‑binding protein YtfQ |
| RA | NZ_CP022686 | 3,281,004 | T→G | 8.2% | F75V (TTT→GTT) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,281,052 | T→G | 6.2% | F91V (TTT→GTT) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,281,062 | T→G | 9.8% | V94G (GTG→GGG) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,281,064 | T→G | 10.5% | L95V (TTG→GTG) | yjfF → | sugar ABC transporter permease YjfF |
| RA | NZ_CP022686 | 3,297,333 | T→G | 13.9% | F828V (TTT→GTT) | mgtA → | magnesium‑translocating P‑type ATPase |
| RA | NZ_CP022686 | 3,348,342 | A→T | 7.0% | intergenic (‑158/‑42) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,348,371 | T→G | 6.6% | intergenic (‑187/‑13) | CIW80_RS16685 ← / → CIW80_RS26495 | inovirus Gp2 family protein/hypothetical protein |
| RA | NZ_CP022686 | 3,387,116 | A→C | 11.9% | F86V (TTT→GTT) | sgcA ← | SgcA family PTS sugar transporter subunit IIA |
| RA | NZ_CP022686 | 3,390,629 | C→A | 14.8% | W138C (TGG→TGT) | sgcX ← | M42 family metallopeptidase |
| RA | NZ_CP022686 | 3,424,795 | A→C | 100% | intergenic (‑41/+27) | yjiJ ← / ← yjiK | MFS transporter/YjiK family protein |
| RA | NZ_CP022686 | 3,444,704 | T→G | 9.9% | T530P (ACC→CCC) | btsT ← | pyruvate/proton symporter BtsT |
| RA | NZ_CP022686 | 3,451,845 | A→C | 8.7% | E278D (GAA→GAC) | lgoD → | L‑galactonate oxidoreductase |
| RA | NZ_CP022686 | 3,461,218 | G→C | 13.4% | intergenic (‑27/+8) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,221 | T→G | 10.6% | intergenic (‑30/+5) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,223 | G→T | 10.9% | intergenic (‑32/+3) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,224 | T→G | 14.3% | intergenic (‑33/+2) | CIW80_RS17335 ← / ← CIW80_RS17340 | tRNA‑Leu/tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,229 | T→G | 18.6% | noncoding (84/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,461,247 | A→C | 12.0% | noncoding (66/87 nt) | CIW80_RS17340 ← | tRNA‑Leu |
| RA | NZ_CP022686 | 3,469,923 | T→G | 7.4% | E122D (GAA→GAC) | yjjW ← | YjjW family glycine radical enzyme activase |
| RA | NZ_CP022686 | 3,504,054 | T→G | 7.3% | V204G (GTT→GGT) | tal → | transaldolase |
| RA | NZ_CP022686 | 3,508,399 | A→C | 6.1% | D289A (GAC→GCC) | dnaK → | molecular chaperone DnaK |
| RA | NZ_CP022686 | 3,516,075 | T→G | 8.3% | V213G (GTG→GGG) | nhaA → | Na+/H+ antiporter NhaA |
| RA | NZ_CP022686 | 3,526,230 | G→T | 6.3% | A209S (GCC→TCC) | dapB → | 4‑hydroxy‑tetrahydrodipicolinate reductase |
| RA | NZ_CP022686 | 3,604,564 | G→T | 17.6% | intergenic (+80/‑151) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,604,565 | A→T | 17.3% | intergenic (+81/‑150) | lpxC → / → secM | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/secA translation cis‑regulator SecM |
| RA | NZ_CP022686 | 3,652,079 | T→G | 11.2% | intergenic (‑88/+24) | panB ← / ← CIW80_RS18255 | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase/fimbrial‑like adhesin |
| RA | NZ_CP022686 | 3,656,188 | A→G | 100% | S549P (TCC→CCC) | htrE ← | outer membrane usher protein |
| RA | NZ_CP022686 | 3,703,648 | A→C | 5.9% | T120P (ACG→CCG) | fabZ → | 3‑hydroxyacyl‑ACP dehydratase FabZ |
| RA | NZ_CP022686 | 3,714,342 | T→G | 7.7% | L275V (TTG→GTG) | tilS → | tRNA lysidine(34) synthetase TilS |
| RA | NZ_CP022686 | 3,731,466 | T→C | 100% | intergenic (+20/‑35) | rrf → / → CIW80_RS18620 | 5S ribosomal RNA/tRNA‑Asp |
| RA | NZ_CP022686 | 3,731,470 | C→T | 100% | intergenic (+24/‑31) | rrf → / → CIW80_RS18620 | 5S ribosomal RNA/tRNA‑Asp |
| RA | NZ_CP022686 | 3,731,473 | Δ1 bp | 100% | intergenic (+27/‑28) | rrf → / → CIW80_RS18620 | 5S ribosomal RNA/tRNA‑Asp |
| RA | NZ_CP022686 | 3,734,367 | T→G | 22.9% | F225V (TTT→GTT) | yafD → | endonuclease/exonuclease/phosphatase family protein |
| RA | NZ_CP022686 | 3,736,542 | C→A | 8.6% | G70V (GGA→GTA) | mltD ← | murein transglycosylase D |
| RA | NZ_CP022686 | 3,748,050 | T→G | 6.2% | K22N (AAA→AAC) | CIW80_RS18735 ← | hypothetical protein |
| RA | NZ_CP022686 | 3,770,524 | T→G | 6.8% | intergenic (‑260/+203) | CIW80_RS26265 ← / ← CIW80_RS18890 | ATP‑binding protein/hypothetical protein |
| RA | NZ_CP022686 | 3,792,805 | A→G | 100% | Y421C (TAC→TGC) | fucP → | L‑fucose:H+ symporter permease |
| RA | NZ_CP022686 | 3,797,493 | G→T | 13.7% | G134C (GGT→TGT) | CIW80_RS19065 → | LacI family DNA‑binding transcriptional regulator |
| RA | NZ_CP022686 | 3,806,266 | A→C | 7.6% | Y1586S (TAC→TCC) | cdiA → | contact‑dependent inhibition effector tRNA nuclease |
| RA | NZ_CP022686 | 3,868,846 | T→G | 8.9% | T383P (ACG→CCG) | ecpC ← | fimbrial usher EcpC |
| RA | NZ_CP022686 | 3,895,500 | G→T | 7.3% | intergenic (‑106/+78) | CIW80_RS19510 ← / ← CIW80_RS19515 | protein YkgH/autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | NZ_CP022686 | 3,910,616 | C→A | 6.9% | G145G (GGG→GGT) | yahC ← | DUF1097 domain‑containing protein |
| RA | NZ_CP022686 | 3,925,283 | G→C | 9.7% | S154T (AGC→ACC) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,925,289 | A→C | 10.6% | N156T (AAC→ACC) | prpC → | 2‑methylcitrate synthase |
| RA | NZ_CP022686 | 3,935,324 | T→G | 9.6% | N705T (AAC→ACC) | lacZ ← | beta‑galactosidase |
| RA | NZ_CP022686 | 3,940,707 | A→C | 9.7% | F314V (TTT→GTT) | frmA ← | S‑(hydroxymethyl)glutathione dehydrogenase |
| RA | NZ_CP022686 | 3,942,556 | T→G | 7.9% | T121P (ACG→CCG) | yaiO ← | YaiO family outer membrane beta‑barrel protein |
| RA | NZ_CP022686 | 3,977,656 | A→C | 8.4% | K88N (AAA→AAC) | phoR → | phosphate regulon sensor histidine kinase PhoR |
| RA | NZ_CP022686 | 3,988,213 | T→G | 6.4% | V313G (GTT→GGT) | secD → | protein translocase subunit SecD |
| RA | NZ_CP022686 | 4,014,238 | C→G | 9.9% | intergenic (+84/‑260) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,014,242 | A→T | 9.9% | intergenic (+88/‑256) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,014,250 | C→G | 8.6% | intergenic (+96/‑248) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,014,291 | G→T | 21.6% | intergenic (+137/‑207) | bolA → / → tig | transcriptional regulator BolA/trigger factor |
| RA | NZ_CP022686 | 4,056,941 | T→G | 11.7% | G130G (GGT→GGG) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,946 | T→G | 7.2% | V132G (GTT→GGT) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,056,962 | C→A | 17.7% | F137L (TTC→TTA) | adk → | adenylate kinase |
| RA | NZ_CP022686 | 4,133,839 | T→G | 10.7% | K117T (AAA→ACA) | ybdF ← | MmcQ/YjbR family DNA‑binding protein |
| RA | NZ_CP022686 | 4,188,926 | A→C | 8.4% | V327G (GTC→GGC) | rlpA ← | endolytic peptidoglycan transglycosylase RlpA |
| RA | NZ_CP022686 | 4,214,218 | T→A | 6.5% | intergenic (‑6/+43) | CIW80_RS21085 ← / ← CIW80_RS21090 | tRNA‑Gln/tRNA‑Met |
| RA | NZ_CP022686 | 4,269,248 | A→C | 6.2% | intergenic (+443/‑108) | sdhB → / → sucA | succinate dehydrogenase iron‑sulfur subunit SdhB/2‑oxoglutarate dehydrogenase E1 component |
| RA | NZ_CP022686 | 4,280,095 | T→G | 7.8% | G103G (GGT→GGG) | cydB → | cytochrome d ubiquinol oxidase subunit II |
| RA | NZ_CP022686 | 4,285,435 | G→T | 5.0% | V317V (GTG→GTT) | tolB → | Tol‑Pal system beta propeller repeat protein TolB |
| RA | NZ_CP022686 | 4,331,903 | T→A | 11.2% | Y301F (TAC→TTC) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,331,905 | A→C | 10.0% | G300G (GGT→GGG) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,331,929 | C→A | 14.6% | M292I (ATG→ATT) | ybhR ← | ABC transporter permease |
| RA | NZ_CP022686 | 4,368,341 | T→G | 13.0% | D47A (GAC→GCC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,368,380 | T→G | 11.1% | N34T (AAC→ACC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | NZ_CP022686 | 4,440,334 | A→C | 23.5% | Q797H (CAA→CAC) | ftsK → | DNA translocase FtsK |
| RA | NZ_CP022686 | 4,461,745 | G→T | 9.2% | intergenic (+99/‑71) | aroA → / → ycaL | 3‑phosphoshikimate 1‑carboxyvinyltransferase/metallopeptidase YcaL |
| RA | NZ_CP022686 | 4,485,614 | T→G | 11.9% | F139V (TTT→GTT) | gloC → | hydroxyacylglutathione hydrolase GloC |
| RA | NZ_CP022686 | 4,535,285 | A→C | 8.8% | K97T (AAG→ACG) | appA → | bifunctional acid phosphatase/4‑phytase |
| RA | NZ_CP022686 | 4,535,355 | A→C | 8.8% | E120D (GAA→GAC) | appA → | bifunctional acid phosphatase/4‑phytase |
| RA | NZ_CP022686 | 4,571,454 | A→C | 7.5% | V54G (GTC→GGC) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,571,459 | G→T | 9.7% | F52L (TTC→TTA) | pgaC ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| RA | NZ_CP022686 | 4,587,091 | T→G | 12.5% | N609T (AAC→ACC) | CIW80_RS22915 ← | enterotoxin |
| RA | NZ_CP022686 | 4,605,584 | C→G | 12.7% | R54P (CGC→CCC) | CIW80_RS23010 ← | hypothetical protein |
| RA | NZ_CP022686 | 4,615,707 | A→T | 24.0% | E120V (GAA→GTA) | CIW80_RS23065 → | hypothetical protein |
| RA | NZ_CP022686 | 4,632,182 | T→G | 6.9% | R276R (CGT→CGG) | mchF → | microcin export transporter peptidase/ATP‑binding subunit MchF |
| RA | NZ_CP022686 | 4,678,033 | T→G | 31.5% | intergenic (+31/‑90) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,678,041 | A→C | 17.6% | intergenic (+39/‑82) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,678,047 | A→C | 22.8% | intergenic (+45/‑76) | agn43 → / → CIW80_RS23450 | autotransporter adhesin Ag43/hypothetical protein |
| RA | NZ_CP022686 | 4,764,877 | T→G | 15.4% | intergenic (‑57/‑204) | ycfT ← / → lolC | acyltransferase family protein/lipoprotein‑releasing ABC transporter permease subunit LolC |
| RA | NZ_CP022686 | 4,814,990 | T→G | 12.5% | F71V (TTT→GTT) | CIW80_RS24295 → | phage tail protein |
| RA | NZ_CP022686 | 4,814,993 | C→G | 6.5% | L72V (CTG→GTG) | CIW80_RS24295 → | phage tail protein |
| RA | NZ_CP022686 | 4,839,668 | T→G | 18.1% | V150V (GTA→GTC) ‡ | minD ← | septum site‑determining protein MinD |
| RA | NZ_CP022686 | 4,839,669 | A→T | 9.9% | V150E (GTA→GAA) ‡ | minD ← | septum site‑determining protein MinD |
| RA | NZ_CP022686 | 4,839,687 | T→G | 15.2% | N144T (AAC→ACC) | minD ← | septum site‑determining protein MinD |
| RA | NZ_CP022686 | 4,850,805 | T→A | 6.6% | Y208F (TAT→TTT) | ycgB ← | SpoVR family protein |
| 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 | 4,905,178 | T→G | 11.0% | F102V (TTC→GTC) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,905,232 | A→T | 7.5% | S120C (AGC→TGC) | CIW80_RS24815 → | coenzyme F390 synthetase |
| RA | NZ_CP022686 | 4,909,243 | T→A | 8.9% | intergenic (‑9/+25) | CIW80_RS24840 ← / ← CIW80_RS24845 | tRNA‑Tyr/tRNA‑Tyr |
| RA | NZ_CP022686 | 4,916,128 | A→C | 8.2% | intergenic (+255/+30) | tdk → / ← CIW80_RS24885 | thymidine kinase/IS4 family transposase |
| RA | NZ_CP022686 | 4,980,895 | A→C | 10.0% | C101W (TGT→TGG) | sapD ← | peptide ABC transporter ATP‑binding protein SapD |
| RA | NZ_CP022686 | 5,001,141 | G→T | 8.0% | M155I (ATG→ATT) | ompG → | monomeric porin OmpG |
| RA | NZ_CP022686 | 5,001,164 | A→C | 12.1% | N163T (AAC→ACC) | ompG → | monomeric porin OmpG |
| RA | NZ_CP022686 | 5,042,304 | T→G | 12.1% | N645K (AAT→AAG) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,648 | G→C | 7.7% | V1093V (GTG→GTC) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,043,921 | C→T | 7.7% | N1184N (AAC→AAT) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,044,182 | T→A | 8.2% | G1271G (GGT→GGA) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| RA | NZ_CP022686 | 5,044,641 | C→T | 5.2% | N1424N (AAC→AAT) | CIW80_RS25525 → | EntS/YbdA MFS transporter |
| JC | pHH‑29_RBS | 1,392 | Δ4 bp | 8.8% | intergenic (–/‑41) | – / → ompA | –/– |
| JC | pHH‑29_RBS | 1,534 | Δ13 bp | 72.3% | coding (36‑48/570 nt) | Aldafermin (NGM282) → | |
| RA | pHH‑29_RBS | 1,700 | G→T | 7.1% | G68* (GGA→TGA) | Aldafermin (NGM282) → | |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_MW240712 | 681–2618 | 3048–2957 | 340–2368 | 5676 [5442] | [5492] 5761 | JNG15_RS00010–mobA | JNG15_RS00010,JNG15_RS00015,mobA |
| * | * | ÷ | pHH‑29_RBS | 2769–2898 | 5510–3245 | 348–2742 | 5488 [5253] | [4514] 5567 | 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 | 3899666 = | 281 (1.180) | 50 (0.240) | 25/218 | NT | 17.7% | intergenic (‑40/+290) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA |
| ? | NZ_CP022686 | 3899944 = | 221 (1.070) | intergenic (‑318/+12) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA | |||||
| * | ? | NZ_CP022686 | = 3899681 | 271 (1.140) | 41 (0.200) | 26/218 | NT | 15.2% | intergenic (‑55/+275) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA |
| ? | NZ_CP022686 | = 3899927 | 221 (1.070) | intergenic (‑301/+29) | hyxR/ipbA | LuxR family transcriptional regulator HyxR/tyrosine‑type DNA invertase IpbA | |||||