breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 49,765 C→T intergenic (+134/‑58) kefC → / → folA glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase
RA 49,898 G→A A26T (GCC→ACC)  folA → type 3 dihydrofolate reductase
RA 49,912 G→T W30C (TGG→TGT)  folA → type 3 dihydrofolate reductase
RA 452,311 A→T Q60L (CAG→CTG)  clpP → ATP‑dependent Clp endopeptidase proteolytic subunit ClpP
MC JC 2,399,465 Δ7 bp coding (650‑656/939 nt) lrhA ← transcriptional regulator LrhA

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 153661 153744 84 7 [1] [1] 2 [folK] [folK]
* * ÷ NZ_CP009273 280889 280958 70 2 [1] [1] 2 yagF/yagG xylonate dehydratase YagF/MFS transporter
* * ÷ NZ_CP009273 288597 288608 12 2 [0] [1] 2 yagK inovirus Gp2 family protein
* * ÷ NZ_CP009273 295809 295821 13 2 [0] [1] 2 paoC aldehyde oxidoreductase molybdenum‑binding subunit PaoC
* * ÷ NZ_CP009273 327504 327518 15 3 [1] [0] 2 [BW25113_RS25450] [BW25113_RS25450]
* * ÷ NZ_CP009273 344672 344692 21 2 [1] [1] 2 prpB methylisocitrate lyase
* * ÷ NZ_CP009273 356981 357574 594 3 [0] [1] 2 [lacA] [lacA]
* * ÷ NZ_CP009273 380272 380306 35 2 [1] [1] 3 BW25113_RS01880/tauA PIG‑L family deacetylase/taurine ABC transporter substrate‑binding protein
* * ÷ NZ_CP009273 380380 380469 90 2 [1] [1] 2 BW25113_RS01880/tauA PIG‑L family deacetylase/taurine ABC transporter substrate‑binding protein
* * ÷ NZ_CP009273 396668 396680 13 2 [1] [0] 2 BW25113_RS25915/iraP hypothetical protein/anti‑adapter protein IraP
* * ÷ NZ_CP009273 482372 482375 4 4 [0] [0] 2 mscK mechanosensitive channel MscK
* * ÷ NZ_CP009273 509874 509886 13 4 [1] [1] 3 ybbJ NfeD family protein
* * ÷ NZ_CP009273 518489 518521 33 2 [1] [0] 2 ybbP/rhsD ABC transporter permease/rhs element protein RhsD
* * ÷ NZ_CP009273 518578 518587 10 2 [0] [0] 3 ybbP/rhsD ABC transporter permease/rhs element protein RhsD
* * ÷ NZ_CP009273 565896 565933 38 3 [1] [0] 3 ybcK/ybcL recombinase family protein/Raf kinase inhibitor‑like protein YbcL
* * ÷ NZ_CP009273 578773 578839 67 2 [1] [0] 2 BW25113_RS26085/appY tail fiber assembly protein/DNA‑binding transcriptional activator AppY
* * ÷ NZ_CP009273 578903 579169 267 2 [0] [1] 2 [appY] [appY]
* * ÷ NZ_CP009273 579523 579567 45 2 [1] [0] 2 appY DNA‑binding transcriptional activator AppY
* * ÷ NZ_CP009273 579917 579962 46 2 [1] [1] 2 appY/ompT DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT
* * ÷ NZ_CP009273 590076 590090 15 2 [1] [1] 5 cusS Cu(+)/Ag(+) sensor histidine kinase CusS
* * ÷ NZ_CP009273 602512 602584 73 2 [1] [1] 2 ybdK YbdK family carboxylate‑amine ligase
* * ÷ NZ_CP009273 603148 603215 68 2 [1] [1] 3 ybdK/hokE YbdK family carboxylate‑amine ligase/type I toxin‑antitoxin system toxin HokE
* * ÷ NZ_CP009273 613791 613835 45 2 [1] [1] 2 wzz(fepE) LPS O‑antigen length regulator Wzz(fepE)
* * ÷ NZ_CP009273 633318 633344 27 2 [1] [1] 2 dsbG thiol:disulfide interchange protein DsbG
* * ÷ NZ_CP009273 640486 640493 8 3 [0] [1] 3 rna/citT ribonuclease I/citrate/succinate antiporter CitT
* * ÷ NZ_CP009273 647502 647571 70 2 [1] [1] 2 citC/dpiB [citrate (pro‑3S)‑lyase] ligase/sensor histidine kinase DpiB
* * ÷ NZ_CP009273 682817 682835 19 2 [0] [1] 2 gltI glutamate/aspartate ABC transporter substrate‑binding protein GltI
* * ÷ NZ_CP009273 699729 699739 11 2 [1] [0] 2 nagE PTS N‑acetyl glucosamine transporter subunit IIABC
* * ÷ NZ_CP009273 703451 703504 54 2 [0] [1] 2 glnS/chiP glutamine‑‑tRNA ligase/chitoporin
* * ÷ NZ_CP009273 716342 716470 129 2 [1] [1] 2 BW25113_RS26090/kdpE leader peptide SpeFL/two‑component system response regulator KdpE
* * ÷ NZ_CP009273 716692 716738 47 3 [1] [0] 2 kdpE two‑component system response regulator KdpE
* * ÷ NZ_CP009273 718895 718903 9 2 [0] [1] 2 kdpD two‑component system sensor histidine kinase KdpD
* * ÷ NZ_CP009273 724885 724998 114 2 [0] [1] 3 ybfA/rhsC YbfA family protein/rhs element protein RhsC
* * ÷ NZ_CP009273 725095 725105 11 2 [1] [1] 2 rhsC rhs element protein RhsC
* * ÷ NZ_CP009273 729511 729691–729604 94–181 3 [1] [1] 2 [BW25113_RS03630]–[BW25113_RS03635] [BW25113_RS03630],[BW25113_RS03635]
* * ÷ NZ_CP009273 733593 733684–733605 13–92 2 [1] [1] 3 ybfD ISAs1 family transposase
* * ÷ NZ_CP009273 739927 739976 50 2 [1] [1] 4 pxpC 5‑oxoprolinase subunit PxpC
* * ÷ NZ_CP009273 740777 740795 19 2 [1] [1] 2 pxpA 5‑oxoprolinase subunit PxpA
* * ÷ NZ_CP009273 747708 747768 61 2 [0] [1] 3 ybgD fimbrial protein
* * ÷ NZ_CP009273 748321 748424 104 2 [1] [1] 2 ybgD/gltA fimbrial protein/citrate synthase
* * ÷ NZ_CP009273 760499 760528 30 2 [1] [1] 2 [sucD] [sucD]
* * ÷ NZ_CP009273 766293 766387 95 3 [1] [1] 2 mngB/cydA mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I
* * ÷ NZ_CP009273 766536 766590 55 2 [1] [1] 3 mngB/cydA mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I
* * ÷ NZ_CP009273 794261 794378 118 3 [1] [0] 2 pgl 6‑phosphogluconolactonase
* * ÷ NZ_CP009273 799838 799889 52 3 [1] [1] 2 ybhJ hydratase
* * ÷ NZ_CP009273 837126 837218 93 3 [1] [1] 2 fiu/mcbA catecholate siderophore receptor Fiu/DUF1471 family periplasmic protein McbA
* * ÷ NZ_CP009273 843752 843785 34 2 [1] [1] 2 glnH/dps glutamine ABC transporter substrate‑binding protein GlnH/DNA starvation/stationary phase protection protein Dps
* * ÷ NZ_CP009273 896114 896202 89 2 [1] [1] 3 artJ/artM ABC transporter substrate‑binding protein ArtJ/arginine ABC transporter permease ArtM
* * ÷ NZ_CP009273 896921 896940 20 3 [1] [1] 2 artM arginine ABC transporter permease ArtM
* * ÷ NZ_CP009273 903396 903422 27 3 [1] [1] 2 ybjT SDR family oxidoreductase
* * ÷ NZ_CP009273 903983 904008 26 2 [1] [1] 2 ltaE low‑specificity L‑threonine aldolase
* * ÷ NZ_CP009273 911860 911952 93 2 [0] [1] 2 [ybjD] [ybjD]
* * ÷ NZ_CP009273 912147 912164 18 3 [1] [1] 3 ybjD ATP‑dependent endonuclease
* * ÷ NZ_CP009273 927130 927152 23 2 [1] [1] 2 trxB thioredoxin‑disulfide reductase
* * ÷ NZ_CP009273 930398 930413 16 2 [1] [0] 3 ftsK DNA translocase FtsK
* * ÷ NZ_CP009273 939283 939328 46 3 [0] [1] 3 dmsB dimethylsulfoxide reductase subunit B
* * ÷ NZ_CP009273 950053 950255 203 3 [0] [1] 3 focA/ycaO formate transporter FocA/30S ribosomal protein S12 methylthiotransferase accessory factor YcaO
* * ÷ NZ_CP009273 969622 969636 15 3 [1] [1] 3 cmoM tRNA uridine 5‑oxyacetic acid(34) methyltransferase CmoM
* * ÷ NZ_CP009273 972001 972030 30 3 [1] [1] 2 mukB chromosome partition protein MukB
* * ÷ NZ_CP009273 982605 982627 23 2 [1] [0] 2 ompF/asnS porin OmpF/asparagine‑‑tRNA ligase
* * ÷ NZ_CP009273 982721 982730 10 2 [0] [1] 2 ompF/asnS porin OmpF/asparagine‑‑tRNA ligase
* * ÷ NZ_CP009273 987944 987984 41 2 [1] [1] 2 pepN aminopeptidase N
* * ÷ NZ_CP009273 989334 989376 43 3 [1] [0] 3 ssuB aliphatic sulfonates ABC transporter ATP‑binding protein
* * ÷ NZ_CP009273 993045 993182 138 3 [1] [1] 2 ssuE/elfA NADPH‑dependent FMN reductase/fimbrial protein
* * ÷ NZ_CP009273 1010943 1010988 46 3 [1] [0] 2 pqiC/rmf membrane integrity‑associated transporter subunit PqiC/ribosome modulation factor
* * ÷ NZ_CP009273 1028303 1028405 103 3 [1] [1] 2 hyaA hydrogenase 1 small subunit
* * ÷ NZ_CP009273 1046196 1046242 47 4 [1] [0] 2 BW25113_RS05135/cspH IS1‑like element IS1D family transposase/cold shock‑like protein CspH
* * ÷ NZ_CP009273 1051157 1051255 99 2 [1] [1] 2 torS TMAO reductase system sensor histidine kinase/response regulator TorS
* * ÷ NZ_CP009273 1055560 1055579 20 4 [0] [1] 2 torA trimethylamine‑N‑oxide reductase TorA
* * ÷ NZ_CP009273 1062400 1062412 13 2 [1] [1] 2 yccJ YccJ family protein
* * ÷ NZ_CP009273 1066660 1066684 25 2 [0] [1] 2 rutD pyrimidine utilization protein D
* * ÷ NZ_CP009273 1067928 1067985 58 4 [0] [1] 4 rutB peroxyureidoacrylate/ureidoacrylate amidohydrolase RutB
* * ÷ NZ_CP009273 1096172 1096235 64 2 [1] [1] 2 ycdZ DUF1097 domain‑containing protein
* * ÷ NZ_CP009273 1098610 1098641 32 2 [1] [1] 3 csgD biofilm master transcriptional regulator CsgD
* * ÷ NZ_CP009273 1098864 1098876 13 2 [0] [1] 2 csgD/csgB biofilm master transcriptional regulator CsgD/curli minor subunit CsgB
* * ÷ NZ_CP009273 1098962 1098984 23 2 [1] [1] 2 csgD/csgB biofilm master transcriptional regulator CsgD/curli minor subunit CsgB
* * ÷ NZ_CP009273 1112113 1112135 23 2 [1] [1] 2 lpxL/trhO kdo(2)‑lipid IV(A) lauroyltransferase/rhodanese‑related sulfurtransferase
* * ÷ NZ_CP009273 1116686 1116709 24 2 [1] [1] 2 [dinI] [dinI]
* * ÷ NZ_CP009273 1119227 1119278 52 2 [1] [1] 2 grxB glutaredoxin 2
* * ÷ NZ_CP009273 1126828 1126838 11 2 [0] [1] 2 flgB flagellar basal body rod protein FlgB
* * ÷ NZ_CP009273 1128408 1128462 55 2 [1] [1] 2 flgE flagellar hook protein FlgE
* * ÷ NZ_CP009273 1129309 1129314 6 2 [1] [0] 2 flgF flagellar basal‑body rod protein FlgF
* * ÷ NZ_CP009273 1129678 1129733 56 2 [0] [0] 2 flgF flagellar basal‑body rod protein FlgF
* * ÷ NZ_CP009273 1129837 1129854 18 2 [1] [1] 2 flgF flagellar basal‑body rod protein FlgF
* * ÷ NZ_CP009273 1143499 1143533 35 3 [1] [1] 2 plsX phosphate acyltransferase PlsX
* * ÷ NZ_CP009273 1148675 1148713 39 2 [0] [1] 2 fabF/pabC beta‑ketoacyl‑ACP synthase II/aminodeoxychorismate lyase
* * ÷ NZ_CP009273 1152071 1152108 38 2 [1] [1] 2 holB DNA polymerase III subunit delta'
* * ÷ NZ_CP009273 1162814 1162848 35 2 [1] [1] 3 [ndh] [ndh]
* * ÷ NZ_CP009273 1164370 1164448 79 2 [1] [1] 3 comR/bhsA TetR family copper‑responsive transcriptional repressor ComR/multiple stress resistance protein BhsA
* * ÷ NZ_CP009273 1166218 1166244 27 2 [1] [1] 2 mfd transcription‑repair coupling factor
* * ÷ NZ_CP009273 1169637 1169647 11 2 [1] [0] 3 ycfT acyltransferase family protein
* * ÷ NZ_CP009273 1174393 1174415 23 3 [1] [1] 2 nagK N‑acetylglucosamine kinase
* * ÷ NZ_CP009273 1174828 1174887 60 2 [1] [1] 2 nagK N‑acetylglucosamine kinase
* * ÷ NZ_CP009273 1182125 1182128 4 3 [1] [0] 3 pepT peptidase T
* * ÷ NZ_CP009273 1185925 1185950 26 2 [1] [1] 2 phoP/purB two‑component system response regulator PhoP/adenylosuccinate lyase
* * ÷ NZ_CP009273 1193185 1193190 6 2 [1] [0] 2 BW25113_RS05920 hypothetical protein
* * ÷ NZ_CP009273 1206560 1206611 52 2 [0] [0] 2 mcrA 5‑methylcytosine‑specific endonuclease McrA
* * ÷ NZ_CP009273 1207481 1207666 186 4 [1] [1] 2 iraM/BW25113_RS25985 anti‑adapter protein IraM/protein YmgK
* * ÷ NZ_CP009273 1207954 1207974 21 3 [1] [1] 2 BW25113_RS25985/BW25113_RS25535 protein YmgK/hypothetical protein
* * ÷ NZ_CP009273 1208369 1208372 4 3 [0] [1] 2 ycgX DUF1398 domain‑containing protein
* * ÷ NZ_CP009273 1211308 1211426 119 2 [1] [1] 2 ycgZ regulatory protein YcgZ
* * ÷ NZ_CP009273 1211757 1211792 36 2 [1] [1] 2 ymgA two‑component‑system connector protein YmgA
* * ÷ NZ_CP009273 1214835 1214997 163 2 [1] [1] 2 BW25113_RS06070/BW25113_RS25990 hypothetical protein/autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1216321 1216342 22 2 [0] [1] 2 BW25113_RS25990 autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1223435 1223509 75 3 [1] [1] 2 [BW25113_RS06140] [BW25113_RS06140]
* * ÷ NZ_CP009273 1227668 1227680 13 2 [1] [1] 2 umuC DNA polymerase V catalytic protein
* * ÷ NZ_CP009273 1232969 1233014 46 2 [1] [1] 2 ycgB/dadA SpoVR family protein/D‑amino acid dehydrogenase
* * ÷ NZ_CP009273 1241414 1241490 77 2 [1] [1] 2 treA alpha,alpha‑trehalase
* * ÷ NZ_CP009273 1251606 1251633 28 2 [1] [0] 2 ycgV/ychF autotransporter outer membrane beta‑barrel domain‑containing protein/redox‑regulated ATPase YchF
* * ÷ NZ_CP009273 1254173 1254187 15 2 [0] [0] 2 pth/ychH aminoacyl‑tRNA hydrolase/stress‑induced protein YchH
* * ÷ NZ_CP009273 1255834 1255902 69 2 [1] [0] 2 dauA C4‑dicarboxylic acid transporter DauA
* * ÷ NZ_CP009273 1261148 1261184 37 2 [1] [1] 2 prfA peptide chain release factor 1
* * ÷ NZ_CP009273 1275605 1275615 11 3 [0] [1] 2 narG nitrate reductase subunit alpha
* * ÷ NZ_CP009273 1276848 1276908 61 2 [0] [0] 2 narG nitrate reductase subunit alpha
* * ÷ NZ_CP009273 1276949 1276958 10 2 [0] [0] 3 narG nitrate reductase subunit alpha
* * ÷ NZ_CP009273 1277646 1277656 11 3 [1] [0] 2 narG nitrate reductase subunit alpha
* * ÷ NZ_CP009273 1280087 1280121 35 2 [1] [1] 2 narH nitrate reductase subunit beta
* * ÷ NZ_CP009273 1280666 1280670 5 2 [1] [1] 2 narJ nitrate reductase molybdenum cofactor assembly chaperone
* * ÷ NZ_CP009273 1281528 1281575 48 3 [1] [1] 2 narI respiratory nitrate reductase subunit gamma
* * ÷ NZ_CP009273 1284260 1284281 22 2 [1] [0] 2 ychJ YchJ family protein
* * ÷ NZ_CP009273 1294935 1295025 91 2 [0] [1] 2 BW25113_RS25865 hypothetical protein
* * ÷ NZ_CP009273 1303810 1303902 93 2 [0] [1] 3 kch voltage‑gated potassium channel protein
* * ÷ NZ_CP009273 1306016 1306022 7 2 [0] [1] 3 tonB TonB system transport protein TonB
* * ÷ NZ_CP009273 1310331 1310365 35 2 [1] [1] 2 yciG/trpA general stress protein/tryptophan synthase subunit alpha
* * ÷ NZ_CP009273 1310589 1310646 58 2 [0] [0] 2 yciG/trpA general stress protein/tryptophan synthase subunit alpha
* * ÷ NZ_CP009273 1312408 1312454 47 2 [1] [0] 3 trpB tryptophan synthase subunit beta
* * ÷ NZ_CP009273 1313689 1313699 11 3 [0] [0] 2 trpCF bifunctional indole‑3‑glycerol‑phosphate synthase TrpC/phosphoribosylanthranilate isomerase TrpF
* * ÷ NZ_CP009273 1319056 1319071 16 2 [1] [1] 4 yciQ DUF2207 domain‑containing protein
* * ÷ NZ_CP009273 1324634 1324673 40 3 [1] [1] 2 [sohB] [sohB]
* * ÷ NZ_CP009273 1325307 1325376 70 3 [1] [1] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1326043 1326091 49 2 [1] [0] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1327201 1327206 6 3 [0] [0] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1327571 1327581 11 2 [0] [1] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1330449 1330466 18 2 [1] [1] 2 acnA aconitate hydratase AcnA
* * ÷ NZ_CP009273 1335938 1335977 40 2 [1] [1] 3 lapB lipopolysaccharide assembly protein LapB
* * ÷ NZ_CP009273 1337111 1337196 86 2 [1] [1] 2 yciH stress response translation initiation inhibitor YciH
* * ÷ NZ_CP009273 1341083 1341244 162 2 [0] [1] 2 [BW25113_RS25050]–[rnb] [BW25113_RS25050],[rnb]
* * ÷ NZ_CP009273 1345297 1345307 11 3 [1] [0] 2 fabI/ycjD enoyl‑ACP reductase FabI/DUF559 domain‑containing protein
* * ÷ NZ_CP009273 1360856 1360874 19 2 [1] [1] 2 puuE 4‑aminobutyrate transaminase
* * ÷ NZ_CP009273 1362587 1362596 10 2 [1] [0] 2 pspA phage shock protein PspA
* * ÷ NZ_CP009273 1362698 1362745 48 2 [1] [1] 2 pspA phage shock protein PspA
* * ÷ NZ_CP009273 1363258 1363285 28 2 [1] [1] 2 [pspB]–[pspC] [pspB],[pspC]
* * ÷ NZ_CP009273 1363855 1363914 60 3 [1] [0] 2 [pspD] [pspD]
* * ÷ NZ_CP009273 1364423 1364449 27 2 [1] [1] 2 pspE/ycjM thiosulfate sulfurtransferase PspE/glucosylglycerate phosphorylase
* * ÷ NZ_CP009273 1366367 1366407 41 2 [0] [0] 2 ycjN ABC transporter substrate‑binding protein
* * ÷ NZ_CP009273 1369435 1369446 12 2 [1] [1] 2 ycjQ zinc‑binding alcohol dehydrogenase
* * ÷ NZ_CP009273 1373025 1373050 26 2 [0] [1] 3 ycjT kojibiose phosphorylase
* * ÷ NZ_CP009273 1398819 1398891 73 2 [1] [1] 3 [abgA] [abgA]
* * ÷ NZ_CP009273 1403530 1403569 40 2 [1] [1] 4 zntB/dbpA zinc transporter ZntB/ATP‑dependent RNA helicase DbpA
* * ÷ NZ_CP009273 1433589 1433756 168 3 [1] [1] 2 nifJ pyruvate:ferredoxin (flavodoxin) oxidoreductase
* * ÷ NZ_CP009273 1435150 1435155 6 2 [1] [0] 2 nifJ/ydbJ pyruvate:ferredoxin (flavodoxin) oxidoreductase/DUF333 domain‑containing protein
* * ÷ NZ_CP009273 1440291 1440313 23 3 [1] [1] 2 ydbL YdbL family protein
* * ÷ NZ_CP009273 1453656 1453680 25 2 [1] [1] 2 paaC 3‑hydroxyacyl‑CoA dehydrogenase PaaC
* * ÷ NZ_CP009273 1459426 1459480 55 2 [1] [1] 2 BW25113_RS25580 hypothetical protein
* * ÷ NZ_CP009273 1473928 1473943 16 2 [0] [1] 2 ynbC bifunctional alpha/beta hydrolase/class I SAM‑dependent methyltransferase
* * ÷ NZ_CP009273 1479768 1479831 64 2 [1] [1] 2 hrpA ATP‑dependent RNA helicase HrpA
* * ÷ NZ_CP009273 1513858 1513861 4 2 [1] [1] 3 curA NADPH‑dependent curcumin/dihydrocurcumin reductase
* * ÷ NZ_CP009273 1540353 1540403 51 3 [1] [1] 2 yddL/yddG porin/aromatic amino acid efflux DMT transporter YddG
* * ÷ NZ_CP009273 1556093 1556117 25 2 [1] [1] 2 ddpA ABC transporter substrate‑binding protein
* * ÷ NZ_CP009273 1578360 1578369 10 2 [1] [1] 2 safA/ydeP two‑component system connector SafA/acid resistance putative oxidoreductase YdeP
* * ÷ NZ_CP009273 1631648 1631661 14 2 [0] [1] 2 ydfO DUF1398 domain‑containing protein
* * ÷ NZ_CP009273 1631749 1631780 32 2 [1] [1] 2 ydfO/gnsB DUF1398 domain‑containing protein/addiction module toxin, GnsA/GnsB family
* * ÷ NZ_CP009273 1631927 1632000 74 3 [1] [1] 2 gnsB addiction module toxin, GnsA/GnsB family
* * ÷ NZ_CP009273 1648762 1648770 9 2 [0] [1] 2 rspA starvation‑sensing protein RspA
* * ÷ NZ_CP009273 1686398 1686408 11 2 [1] [1] 2 uidC glucuronide uptake porin UidC
* * ÷ NZ_CP009273 1800511 1800530 20 2 [1] [1] 2 ydiY/pfkB YdiY family protein/6‑phosphofructokinase II
* * ÷ NZ_CP009273 1807367 1807377 11 2 [0] [0] 2 BW25113_RS09050 hypothetical protein
* * ÷ NZ_CP009273 1838899 1838960 62 2 [1] [0] 2 ynjI DUF1266 domain‑containing protein
* * ÷ NZ_CP009273 1865008 1865047 40 2 [1] [1] 2 cdgI GGDEF domain‑containing protein
* * ÷ NZ_CP009273 1952565 1952592 28 2 [0] [0] 2 torY/cutC NapC/NirT family cytochrome c/copper homeostasis protein CutC
* * ÷ NZ_CP009273 1981477 1981478 2 2 [0] [0] 2 azuC/yecR stress response protein AzuC/YecR‑like lipofamily protein
* * ÷ NZ_CP009273 1983573 1983597 25 2 [1] [1] 2 tyrP tyrosine transporter TyrP
* * ÷ NZ_CP009273 1986460 1986495 36 2 [0] [1] 2 uvrC excinuclease ABC subunit UvrC
* * ÷ NZ_CP009273 2017743 2017768 26 2 [1] [0] 3 rcsA transcriptional regulator RcsA
* * ÷ NZ_CP009273 2032476 2032491 16 2 [1] [1] 2 hiuH hydroxyisourate hydrolase
* * ÷ NZ_CP009273 2051043 2051134 92 2 [1] [1] 2 [yeeN] [yeeN]
* * ÷ NZ_CP009273 2062115 2062132 18 3 [1] [1] 6 [BW25113_RS24005] [BW25113_RS24005]
* * ÷ NZ_CP009273 2083949 2083959 11 3 [0] [1] 4 hisG ATP phosphoribosyltransferase
* * ÷ NZ_CP009273 2091848 2091873 26 3 [1] [0] 2 wzzB/ugd LPS O‑antigen chain length determinant protein WzzB/UDP‑glucose 6‑dehydrogenase
* * ÷ NZ_CP009273 2096859 2096924 66 2 [1] [0] 2 [wbbL]–[wbbK] [wbbL],[wbbK]
* * ÷ NZ_CP009273 2096989 2097104 116 2 [0] [1] 2 wbbK glycosyltransferase family 1 protein
* * ÷ NZ_CP009273 2097496 2097573 78 2 [1] [1] 2 wbbK glycosyltransferase family 1 protein
* * ÷ NZ_CP009273 2099599 2099705 107 2 [1] [1] 2 wzy O16 family O‑antigen polymerase
* * ÷ NZ_CP009273 2100199 2100280 82 2 [1] [1] 2 wzy O16 family O‑antigen polymerase
* * ÷ NZ_CP009273 2101609 2101661 53 2 [1] [1] 3 glf UDP‑galactopyranose mutase
* * ÷ NZ_CP009273 2131266 2131289 24 2 [0] [1] 3 wza/yegH polysaccharide export protein Wza/TerC family protein
* * ÷ NZ_CP009273 2144488 2144603 116 2 [1] [1] 2 yegI/yegJ protein kinase YegI/DUF2314 domain‑containing protein
* * ÷ NZ_CP009273 2168071 2168091 21 3 [0] [1] 2 [gatA] [gatA]
* * ÷ NZ_CP009273 2178147 2178169 23 2 [1] [0] 2 thiM hydroxyethylthiazole kinase
* * ÷ NZ_CP009273 2185092 2185171 80 2 [1] [1] 3 [yehD] [yehD]
* * ÷ NZ_CP009273 2185707 2185742 36 2 [1] [0] 2 yehD/yehE fimbrial protein/YehE family protein
* * ÷ NZ_CP009273 2249329 2249334 6 2 [0] [1] 2 yeiL transcriptional regulator YeiL
* * ÷ NZ_CP009273 2255250 2255257 8 2 [0] [1] 2 fruK 1‑phosphofructokinase
* * ÷ NZ_CP009273 2300323 2300406 84 3 [1] [1] 2 mqo/yojI malate dehydrogenase (quinone)/microcin J25 efflux ABC transporter YojI
* * ÷ NZ_CP009273 2300551 2300562 12 2 [0] [1] 2 yojI microcin J25 efflux ABC transporter YojI
* * ÷ NZ_CP009273 2312458 2312467 10 3 [1] [1] 2 rcsC two‑component system sensor histidine kinase RcsC
* * ÷ NZ_CP009273 2336913 2336938 26 6 [1] [1] 3 yfaL AIDA‑I family autotransporter adhesin YfaL/EhaC
* * ÷ NZ_CP009273 2337815 2337868 54 2 [0] [0] 2 yfaL/nrdA AIDA‑I family autotransporter adhesin YfaL/EhaC/ribonucleoside‑diphosphate reductase subunit alpha
* * ÷ NZ_CP009273 2346933 2346940 8 2 [0] [1] 2 glpA anaerobic glycerol‑3‑phosphate dehydrogenase subunit A
* * ÷ NZ_CP009273 2357919 2357929 11 2 [1] [0] 2 yfaZ/nudI YfaZ family protein/nucleoside triphosphatase NudI
* * ÷ NZ_CP009273 2370731 2370834 104 3 [1] [1] 2 menH 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase
* * ÷ NZ_CP009273 2370918 2370933 16 3 [1] [0] 2 menH 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase
* * ÷ NZ_CP009273 2380299 2380373 75 2 [1] [1] 2 [yfbL] [yfbL]
* * ÷ NZ_CP009273 2400321 2400341 21 2 [0] [0] 2 lrhA/alaA transcriptional regulator LrhA/alanine transaminase AlaA
* * ÷ NZ_CP009273 2400761 2400861 101 3 [1] [1] 2 lrhA/alaA transcriptional regulator LrhA/alanine transaminase AlaA
* * ÷ NZ_CP009273 2449125 2449164 40 2 [1] [1] 2 [yfcV] [yfcV]
* * ÷ NZ_CP009273 2462619 2462656 38 2 [0] [1] 2 BW25113_RS12270 hypothetical protein
* * ÷ NZ_CP009273 2462764 2462883 120 2 [1] [1] 2 BW25113_RS12270 hypothetical protein
* * ÷ NZ_CP009273 2463013 2463098 86 3 [1] [1] 3 BW25113_RS12270 hypothetical protein
* * ÷ NZ_CP009273 2463190 2463190 1 2 [0] [0] 2 BW25113_RS12270 hypothetical protein
* * ÷ NZ_CP009273 2505231 2505289 59 2 [1] [1] 2 mntH Nramp family divalent metal transporter
* * ÷ NZ_CP009273 2511455 2511458 4 4 [1] [0] 2 pdeA/BW25113_RS12500 sensor domain‑containing phosphodiesterase/tRNA‑Ala
* * ÷ NZ_CP009273 2531970 2531980 11 2 [0] [1] 2 yfeS/cysM WGR domain‑containing protein/cysteine synthase B
* * ÷ NZ_CP009273 2569292 2569377 86 2 [1] [1] 2 eutS/maeB ethanolamine utilization microcompartment protein EutS/NADP‑dependent oxaloacetate‑decarboxylating malate dehydrogenase
* * ÷ NZ_CP009273 2579637 2579695 59 2 [1] [1] 2 narQ nitrate/nitrite two‑component system sensor histidine kinase NarQ
* * ÷ NZ_CP009273 2584496 2584511 16 2 [1] [0] 2 ypfM/yffB protein YpfM/ArsC family reductase
* * ÷ NZ_CP009273 2622985 2623073 89 2 [0] [1] 3 yfgG/yfgH YfgG family protein/glycine zipper 2TM domain‑containing protein
* * ÷ NZ_CP009273 2623135 2623143 9 2 [0] [0] 3 yfgG/yfgH YfgG family protein/glycine zipper 2TM domain‑containing protein
* * ÷ NZ_CP009273 2636007 2636011 5 2 [0] [1] 3 rodZ cytoskeleton protein RodZ
* * ÷ NZ_CP009273 2638447 2638462 16 2 [0] [1] 2 pbpC peptidoglycan glycosyltransferase PbpC
* * ÷ NZ_CP009273 2645064 2645175 112 2 [1] [1] 3 yfhM alpha2‑macroglobulin
* * ÷ NZ_CP009273 2653441 2653449 9 2 [0] [1] 2 iscU Fe‑S cluster assembly scaffold IscU
* * ÷ NZ_CP009273 2664531 2664550 20 2 [1] [1] 2 hcaC bifunctional 3‑phenylpropionate/cinnamic acid dioxygenase ferredoxin subunit
* * ÷ NZ_CP009273 2693294 2693319 26 3 [1] [0] 2 yfhL/shoB 4Fe‑4S dicluster ferredoxin YfhL/type I toxin‑antitoxin system toxin ShoB
* * ÷ NZ_CP009273 2753213 2753365–2753257 45–153 2 [1] [1] 2 yfjI YfjI family protein
* * ÷ NZ_CP009273 2753681 2753738 58 2 [1] [1] 2 yfjI YfjI family protein
* * ÷ NZ_CP009273 2767029 2767078 50 2 [0] [0] 2 BW25113_RS13770 hypothetical protein
* * ÷ NZ_CP009273 2767730 2767767 38 3 [1] [0] 2 BW25113_RS13770 hypothetical protein
* * ÷ NZ_CP009273 2768149 2768192 44 2 [1] [1] 2 BW25113_RS13770 hypothetical protein
* * ÷ NZ_CP009273 2768277 2768353 77 3 [1] [1] 3 BW25113_RS13770 hypothetical protein
* * ÷ NZ_CP009273 2877621 2877688 68 3 [1] [1] 2 casA/cas3 type I‑E CRISPR‑associated protein Cse1/CasA/CRISPR‑associated helicase/endonuclease Cas3
* * ÷ NZ_CP009273 2897777 2897834 58 3 [1] [0] 2 ygcE/queE FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE
* * ÷ NZ_CP009273 2984532 2984579 48 2 [1] [1] 2 BW25113_RS14825/ygeG hypothetical protein/tetratricopeptide repeat protein
* * ÷ NZ_CP009273 2988538 2988641 104 2 [0] [0] 2 BW25113_RS14850/BW25113_RS26010 response regulator transcription factor/hypothetical protein
* * ÷ NZ_CP009273 3023318 3023328 11 9 [1] [0] 3 ygfT formate‑dependent uric acid utilization protein YgfT
* * ÷ NZ_CP009273 3127432 3127482 51 3 [1] [1] 3 yghS/yghT dTMP kinase/dTMP kinase
* * ÷ NZ_CP009273 3220796 3220830 35 2 [1] [1] 3 ygjI amino acid permease
* * ÷ NZ_CP009273 3247130 3247151 22 2 [0] [1] 4 yhaJ DNA‑binding transcriptional regulator YhaJ
* * ÷ NZ_CP009273 3262444 3262531 88 3 [0] [1] 2 yhaC YhaC family protein
* * ÷ NZ_CP009273 3262697 3262750 54 2 [0] [1] 2 yhaC YhaC family protein
* * ÷ NZ_CP009273 3268176 3268218 43 2 [1] [1] 3 garP galactarate/glucarate/glycerate transporter GarP
* * ÷ NZ_CP009273 3280503 3280588 86 2 [0] [1] 2 agaI/yraH galactosamine‑6‑phosphate isomerase/fimbrial protein
* * ÷ NZ_CP009273 3280679 3280689 11 2 [1] [0] 2 agaI/yraH galactosamine‑6‑phosphate isomerase/fimbrial protein
* * ÷ NZ_CP009273 3280741 3280786 46 2 [0] [1] 4 [yraH] [yraH]
* * ÷ NZ_CP009273 3354247 3354253 7 4 [1] [0] 2 gltD/gltF glutamate synthase subunit GltD/DUF1120 domain‑containing protein
* * ÷ NZ_CP009273 3368139 3368141 3 2 [0] [1] 2 nanR/dcuC transcriptional regulator NanR/anaerobic C4‑dicarboxylate transporter DcuC
* * ÷ NZ_CP009273 3448732 3448756 25 2 [1] [0] 2 gspA type II secretion system protein GspA
* * ÷ NZ_CP009273 3448800 3448879 80 2 [0] [0] 5 gspA/gspC type II secretion system protein GspA/type II secretion system protein GspC
* * ÷ NZ_CP009273 3463358 3463423 66 3 [0] [1] 2 chiA/tuf bifunctional chitinase/lysozyme/elongation factor Tu
* * ÷ NZ_CP009273 3713742 3713761 20 2 [1] [0] 3 [ysaE] [ysaE]
* * ÷ NZ_CP009273 3763222 3763263 42 2 [1] [1] 3 BW25113_RS26240/yibH Imm57 family immunity protein/HlyD family secretion protein
* * ÷ NZ_CP009273 3797613 3797664 52 2 [1] [1] 3 rfaS LPS core biosynthesis protein RfaS
* * ÷ NZ_CP009273 3797708 3797878 171 3 [1] [1] 2 rfaS LPS core biosynthesis protein RfaS
* * ÷ NZ_CP009273 3798244 3798275 32 2 [1] [1] 2 rfaS LPS core biosynthesis protein RfaS
* * ÷ NZ_CP009273 3900164 3900189 26 2 [1] [1] 2 bglG/phoU transcriptional antiterminator BglG/phosphate signaling complex protein PhoU
* * ÷ NZ_CP009273 4080270 4080295 26 3 [0] [1] 2 fdhD/yiiG formate dehydrogenase accessory sulfurtransferase FdhD/YiiG family protein
* * ÷ NZ_CP009273 4084788 4084807 20 3 [1] [0] 2 frvB PTS fructose‑like transporter subunit IIBC
* * ÷ NZ_CP009273 4241447 4241495 49 2 [0] [1] 4 BW25113_RS20970 SopA family protein
* * ÷ NZ_CP009273 4250340 4250341 2 2 [0] [0] 2 BW25113_RS21020 DUF2713 domain‑containing protein
* * ÷ NZ_CP009273 4259140 4259176 37 4 [1] [1] 2 BW25113_RS26020/aphA hypothetical protein/acid phosphatase AphA
* * ÷ NZ_CP009273 4272793 4272842 50 2 [0] [1] 3 espX5 T3SS effector pentapeptide repeat protein EspX5
* * ÷ NZ_CP009273 4272987 4272999 13 2 [0] [1] 5 espX5 T3SS effector pentapeptide repeat protein EspX5
* * ÷ NZ_CP009273 4325864 4325886 23 2 [1] [1] 2 adiC arginine/agmatine antiporter
* * ÷ NZ_CP009273 4466771 4466833 63 2 [0] [1] 2 BW25113_RS22080 hypothetical protein

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =NA (NA)15 (1.190) 11/166 0.2 55.6% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 12 (0.950)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 1203246 =14 (1.110)4 (0.390) 4/134 0.7 35.9% coding (290/630 nt) BW25113_RS05990 hypothetical protein
?NZ_CP009273 1205075 = 3 (0.300)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 1391494NA (NA)9 (0.720) 8/164 0.4 100% intergenic (+145/‑128) BW25113_RS06980/ynaJ IS5‑like element IS5 family transposase/DUF2534 family protein
?NZ_CP009273 1972747 = 0 (0.000)intergenic (‑293/‑487) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* ? NZ_CP009273 = 19727510 (0.000)12 (0.950) 11/166 0.2 100% intergenic (‑297/‑483) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
?NZ_CP009273 = 2283592 NA (NA)intergenic (‑68/‑387) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
* ? NZ_CP009273 4532499 =0 (0.000)7 (0.620) 6/148 0.5 63.6% intergenic (+49/‑433) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 4532813 = 8 (0.710)intergenic (+363/‑119) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
* ? NZ_CP009273 = 45325070 (0.000)12 (1.070) 9/148 0.2 75.0% intergenic (+57/‑425) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 = 4532803 8 (0.710)intergenic (+353/‑129) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA