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 71,134 G→A G250S (GGT→AGT)  araC → DNA‑binding transcriptional dual regulator AraC
MC JC 257,908 Δ776 bp insB9–[crl] insB9, insA9, [crl]
RA 410,649 G→A R169H (CGT→CAT)  mak → fructokinase
RA 481,511 G→A L965F (CTT→TTT)  acrB ← multidrug efflux pump RND permease AcrB
RA 486,927 G→A R131H (CGC→CAC)  mscK → potassium dependent, small conductance mechanosensitive channel
RA 489,812 G→A V1093M (GTG→ATG)  mscK → potassium dependent, small conductance mechanosensitive channel
RA 498,219 G→A P55P (CCG→CCA)  hemH → ferrochelatase
RA 557,635 A→T L36Q (CTG→CAG)  folD ← bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase
JC JC 568,449 IS2 (–) +5 bp coding (135‑139/333 nt) emrE → multidrug/betaine/choline efflux transporter EmrE
RA 631,633 G→A W580* (TGG→TGA)  cstA → pyruvate transporter CstA
RA 673,144 A→G L547P (CTG→CCG)  leuS ← leucine‑‑tRNA ligase
RA 702,796 G→A intergenic (‑45/+15) nagA ← / ← nagB N‑acetylglucosamine‑6‑phosphate deacetylase/glucosamine‑6‑phosphate deaminase
RA 735,014 G→A intergenic (+912/‑636) ybfB → / → ybfC uncharacterized protein YbfB/uncharacterized protein YbfC
RA 737,716 G→A intergenic (+1017/‑376) ybfQ → / → ybfD inactive transposase YbfQ/H repeat‑associated putative transposase YbfD
RA 776,964 G→A R208K (AGA→AAA)  tolA → Tol‑Pal system protein TolA
RA 788,566 G→A T91I (ACC→ATC)  galM ← galactose‑1‑epimerase
RA 795,434 G→A A116T (GCC→ACC)  modA → molybdate ABC transporter periplasmic binding protein
RA 805,726 G→A G742S (GGT→AGT)  ybhJ → putative hydratase YbhJ
RA 810,780 G→A A134T (GCC→ACC)  bioF → 8‑amino‑7‑oxononanoate synthase
RA 823,053 G→A Y229Y (TAC→TAT)  clsB ← cardiolipin synthase B
RA 895,783 G→A E265K (GAA→AAA)  potG → putrescine ABC transporter ATP binding subunit
RA 948,464 G→A K412K (AAG→AAA)  ycaM → putative transporter YcaM
JC JC 1,105,376 IS2 (–) +5 bp intergenic (+83/‑34) csgC → / → ymdA curlin chaperone/uncharacterized protein YmdA
MC JC 1,299,499 Δ1,199 bp insH21 insH21
MC JC 1,303,073 Δ12 bp coding (175‑186/921 nt) oppB → murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppB
RA 1,337,394 A→G S522G (AGC→GGC)  acnA → aconitate hydratase 1
RA 1,353,758 T→A D254V (GAT→GTT)  sapC ← putrescine ABC exporter membrane protein SapC
RA 1,517,508 G→T V40V (GTG→GTT)  ortT → orphan toxin OrtT
RA 1,652,331 T→C intergenic (+2346/+397) ydfD → / ← ynfP lysis protein/protein YnfP
RA 1,744,751 Δ1 bp coding (1295/1374 nt) mdtK → multidrug efflux pump MdtK
RA 1,765,176 G→A intergenic (‑54/+46) ydiH ← / ← menI uncharacterized protein YdiH/1,4‑dihydroxy‑2‑naphthoyl‑CoA hydrolase
RA 1,797,304 G→A P214L (CCG→CTG)  pheT ← phenylalanine‑‑tRNA ligase subunit beta
RA 1,800,738 G→A R611R (CGC→CGT)  thrS ← threonine‑‑tRNA ligase
RA 1,861,513 G→A intergenic (‑181/+189) ydjL ← / ← yeaC putative zinc‑binding dehydrogenase YdjL/DUF1315 domain‑containing protein YeaC
RA 1,886,685 G→A A281T (GCA→ACA)  yeaX → carnitine monooxygenase subunit YeaX
RA 1,915,833 G→A A99V (GCC→GTC)  msrC ← free methionine‑(R)‑sulfoxide reductase
RA 1,948,433 G→A A67V (GCT→GTT)  nudB ← dihydroneopterin triphosphate diphosphatase
RA 1,959,049 G→A A73V (GCC→GTC)  cutC ← PF03932 family protein CutC
RA 1,960,328 G→A P89P (CCG→CCA)  argS → arginine‑‑tRNA ligase
RA 1,964,795 G→A L86L (CTG→TTG)  flhA ← flagellar biosynthesis protein FlhA
RA 1,967,130 G→A A103V (GCC→GTC)  cheY ← chemotaxis protein CheY
RA 1,971,999 G→A A231A (GCC→GCT)  tar ← methyl‑accepting chemotaxis protein Tar
RA 1,980,601 G→A Q338* (CAG→TAG)  otsA ← trehalose‑6‑phosphate synthase
RA 1,981,030 G→A L195L (CTG→TTG)  otsA ← trehalose‑6‑phosphate synthase
RA 1,985,842 G→A A96V (GCC→GTC)  araF ← arabinose ABC transporter periplasmic binding protein
RA 2,003,053 G→A A185V (GCT→GTT)  fliC ← flagellar filament structural protein
RA 2,003,264 C→T E115K (GAA→AAA)  fliC ← flagellar filament structural protein
RA 2,025,376 C→T intergenic (‑63/‑135) dsrA ← / → yedP small regulatory RNA DsrA/putative mannosyl‑3‑phosphoglycerate phosphatase
RA 2,032,423 G→A V219V (GTC→GTT)  yedJ ← putative HD superfamily phosphohydrolase YedJ
RA 2,050,275 G→A D1780N (GAC→AAC)  yeeJ → inverse autotransporter adhesin
RA 2,052,722 G→A intergenic (+708/‑921) yeeJ → / → shiA inverse autotransporter adhesin/shikimate:H(+) symporter
RA 2,104,492 G→A V6V (GTC→GTT)  wbbK ← putative glycosyltransferase WbbK
RA 2,149,138 G→A F616F (TTC→TTT)  yegI ← putative serine/threonine‑protein kinase YegI
RA 2,151,524 G→A D114N (GAT→AAT)  yegJ → DUF2314 domain‑containing protein YegJ
RA 2,152,528 G→A R201C (CGC→TGC)  yegL ← IPR002035 domain‑containing protein YegL
RA 2,153,326 G→A noncoding (16/144 nt) sibA → small RNA SibA
RA 2,156,361 G→A A367T (GCG→ACG)  mdtB → multidrug efflux pump RND permease subunit MdtB
RA 2,158,216 G→A S985N (AGT→AAT)  mdtB → multidrug efflux pump RND permease subunit MdtB
RA 2,168,051 G→A L86L (CTG→TTG)  yegR ← uncharacterized protein YegR
RA 2,168,802 G→A E31K (GAA→AAA)  yegS → lipid kinase YegS
RA 2,173,363 Δ2 bp intergenic (‑490/+918) gatD ← / ← gatB galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component
RA 2,177,343 G→A intergenic (‑139/+169) gatY ← / ← fbaB tagatose‑1,6‑bisphosphate aldolase 2/fructose‑bisphosphate aldolase class I
RA 2,178,654 G→A intergenic (‑90/‑167) fbaB ← / → yegT fructose‑bisphosphate aldolase class I/putative transporter YegT
RA 2,180,087 G→A E423K (GAA→AAA)  yegT → putative transporter YegT
RA 2,185,141 G→A T54I (ACC→ATC)  thiM ← hydroxyethylthiazole kinase
RA 2,200,028 G→A intergenic (+2730/‑251) yehF → / → yehI PF05406 family protein YehF/DUF4132 domain‑containing protein YehI
RA 2,242,121 A→G S283P (TCG→CCG)  yeiB ← DUF418 domain‑containing protein YeiB
JC JC 2,269,876 IS5 (+) +4 bp intergenic (+309/‑100) lpxT → / → mepS lipid A‑core phosphotransferase/peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase
JC JC 2,319,850 IS2 (+) +5 bp coding (23‑27/2850 nt) rcsC ← histidine kinase RcsC
JC JC 2,406,780 IS1 (–) +8 bp intergenic (‑139/‑774) lrhA ← / → alaA DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA
MC JC 2,558,699 Δ6,790 bp intZ–[eutA] intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA]
RA 2,582,140 C→T G213D (GGT→GAT)  ypfG ← DUF1176 domain‑containing protein YpfG
RA 2,748,231 G→A W90* (TGG→TGA)  ypjD → cytochrome c assembly family protein
RA 2,988,671 G→A R57K (AGA→AAA)  yqeI → putative transcriptional regulator YqeI
RA 3,486,205 C→A T29K (ACG→AAG)  crp → DNA‑binding transcriptional dual regulator CRP
RA 3,560,455 +G intergenic (+589/+167) rtcR → / ← glpG DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG
RA 3,596,459 C→T A368T (GCC→ACC)  livK ← L‑leucine/L‑phenylalanine ABC transporter periplasmic binding protein
JC JC 3,737,137 IS2 (+) +5 bp coding (37‑41/825 nt) bax ← putative glycoside hydrolase Bax
RA 3,756,336 G→A S59L (TCG→TTG)  aldB ← aldehyde dehydrogenase B
JC JC 4,123,923 IS2 (–) +5 bp coding (530‑534/1026 nt) cytR ← DNA‑binding transcriptional repressor CytR
RA 4,154,832 G→A P6S (CCG→TCG)  argE ← acetylornithine deacetylase
RA 4,156,777 G→A R255R (CGG→CGA)  argB → acetylglutamate kinase
RA 4,296,381 +GC intergenic (+587/+55) gltP → / ← yjcO glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
RA 4,440,258 C→T V320M (GTG→ATG)  paeA ← putative cadaverine/putrescine exporter
RA 4,495,683 C→T G176D (GGT→GAT)  ahr ← NADPH‑dependent aldehyde reductase Ahr
RA 4,542,683 Δ1 bp intergenic (+50/‑432) fimE → / → fimA regulator for fimA/type 1 fimbriae major subunit
MC JC 4,549,192 Δ39 bp coding (385‑423/903 nt) fimH → type 1 fimbriae D‑mannose specific adhesin

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 5362 5433 72 2 [1] [1] 2 yaaX DUF2502 domain‑containing protein YaaX
* * ÷ NC_000913 42052 42090 39 3 [1] [1] 2 caiT/fixA L‑carnitine:gamma‑butyrobetaine antiporter/putative electron transfer flavoprotein FixA
* * ÷ NC_000913 44774 44879 106 3 [1] [1] 2 fixC putative oxidoreductase FixC
* * ÷ NC_000913 57258 57275 18 2 [1] [0] 6 lptD/djlA lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA
* * ÷ NC_000913 104052 104099 48 2 [1] [1] 2 ftsA cell division protein FtsA
* * ÷ NC_000913 107723 107879 157 2 [1] [1] 2 secM SecA translation regulator
* * ÷ NC_000913 138170 138181 12 2 [0] [1] 2 cueO multicopper oxidase CueO
* * ÷ NC_000913 157052 157192 141 2 [1] [1] 2 yadN/folK putative fimbrial protein YadN/2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine diphosphokinase
* * ÷ NC_000913 164435 164630 196 2 [1] [1] 2 [hrpB] [hrpB]
* * ÷ NC_000913 201727 201943 217 2 [1] [1] 2 lpxD UDP‑3‑O‑(3‑hydroxymyristoyl)glucosamine N‑acyltransferase
* * ÷ NC_000913 245633 245739 107 2 [1] [1] 2 dpaA peptidoglycan meso‑diaminopimelic acid protein amidase A
* * ÷ NC_000913 266393 266447 55 2 [1] [1] 2 yafY inner membrane lipoprotein YafY
* * ÷ NC_000913 298844 298926 83 2 [0] [1] 2 paoC aldehyde dehydrogenase: molybdenum cofactor‑binding subunit
* * ÷ NC_000913 302192 302333 142 3 [1] [1] 2 paoA aldehyde dehydrogenase, Fe‑S subunit
* * ÷ NC_000913 305448 305577 130 2 [1] [1] 2 ecpD fimbrial adhesin EcpD
* * ÷ NC_000913 318675 318710 36 2 [1] [1] 2 [rclA] [rclA]
* * ÷ NC_000913 367635 367670 36 2 [1] [1] 2 mhpR DNA‑binding transcriptional activator MhpR
* * ÷ NC_000913 379879 379957 79 2 [1] [1] 2 [frmR] [frmR]
* * ÷ NC_000913 388653 388889 237 2 [1] [1] 3 [hemB] [hemB]
* * ÷ NC_000913 390827 390889 63 2 [1] [1] 2 yaiT putative autotransporter YaiT
* * ÷ NC_000913 426210 426329 120 2 [1] [1] 2 tgt tRNA‑guanine transglycosylase
* * ÷ NC_000913 447701 447762 62 2 [1] [1] 2 [cyoE]–[cyoD] [cyoE],[cyoD]
* * ÷ NC_000913 541236 541336 101 3 [1] [1] 2 ybbY putative purine transporter
* * ÷ NC_000913 553086 553208 123 2 [1] [0] 2 [purE] [purE]
* * ÷ NC_000913 557266 557329 64 2 [1] [1] 2 folD bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase
* * ÷ NC_000913 583894 584045 152 2 [1] [1] 2 appY DNA‑binding transcriptional activator AppY
* * ÷ NC_000913 607066 607190 125 2 [1] [1] 2 ybdK putative glutamate‑‑cysteine ligase 2
* * ÷ NC_000913 686052 686235 184 2 [1] [1] 3 gltJ glutamate/aspartate ABC transporter membrane subunit GltJ
* * ÷ NC_000913 705715 705808 94 3 [1] [1] 2 nagE N‑acetylglucosamine‑specific PTS enzyme IIABC component
* * ÷ NC_000913 710496 710711 216 2 [1] [1] 2 [fur]–[uof] [fur],[uof]
* * ÷ NC_000913 736076 736106 31 2 [0] [1] 2 ybfC uncharacterized protein YbfC
* * ÷ NC_000913 742082 742096 15 2 [1] [1] 2 dtpD dipeptide:H(+) symporter DtpD
* * ÷ NC_000913 759133 759154 22 2 [1] [1] 2 sucA subunit of E1(0) component of 2‑oxoglutarate dehydrogenase
* * ÷ NC_000913 798145 798276 132 2 [1] [0] 2 ybhA pyridoxal phosphate/fructose‑1,6‑bisphosphate phosphatase
* * ÷ NC_000913 807340 807404 65 3 [0] [1] 2 ybhC/ybhB outer membrane lipoprotein YbhC/putative kinase inhibitor
* * ÷ NC_000913 827023 827060 38 2 [1] [1] 2 ybhS ABC exporter membrane subunit YbhS
* * ÷ NC_000913 829575 829643 69 2 [1] [1] 2 ybhG HlyD_D23 family protein YbhG
* * ÷ NC_000913 839116 839168 53 2 [0] [1] 2 ybiX PKHD‑type hydroxylase YbiX
* * ÷ NC_000913 888234 888298 65 2 [1] [1] 2 ybjL putative transport protein YbjL
* * ÷ NC_000913 891721 891751 31 2 [0] [1] 2 nfsA NADPH‑dependent nitro/quinone reductase NfsA
* * ÷ NC_000913 915186 915211 26 2 [0] [1] 2 lysO/aqpZ L‑lysine/thialysine exporter/water channel AqpZ
* * ÷ NC_000913 935733 935798 66 2 [1] [1] 2 ftsK cell division DNA translocase FtsK
* * ÷ NC_000913 973185 973208 24 2 [1] [1] 3 elyC envelope biogenesis factor
* * ÷ NC_000913 1010889 1010986 98 2 [1] [1] 2 uup ATP‑binding protein Uup
* * ÷ NC_000913 1023362 1023429 68 2 [1] [1] 2 yccS putative transporter YccS
* * ÷ NC_000913 1042773 1042866 94 2 [1] [0] 2 etk protein‑tyrosine kinase Etk
* * ÷ NC_000913 1046024 1046041 18 2 [1] [1] 2 gfcD putative lipoprotein GfcD
* * ÷ NC_000913 1073066 1073078 13 2 [1] [1] 2 rutA pyrimidine monooxygenase RutA
* * ÷ NC_000913 1073112 1073128 17 2 [1] [0] 2 rutA pyrimidine monooxygenase RutA
* * ÷ NC_000913 1124161 1124236 76 2 [1] [1] 2 mdtH multidrug efflux pump MdtH
* * ÷ NC_000913 1129295 1129331 37 2 [1] [1] 2 murJ lipid II flippase MurJ
* * ÷ NC_000913 1140913 1141028 116 2 [1] [0] 2 [flgL]–[flgO] [flgL],[flgO]
* * ÷ NC_000913 1152974 1153145 172 2 [1] [1] 2 fabF 3‑oxoacyl‑[acyl carrier protein] synthase 2
* * ÷ NC_000913 1154498 1154642 145 2 [1] [1] 2 mltG endolytic murein transglycosylase
* * ÷ NC_000913 1196280 1211426 15147 2 [1] [1] 2 [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 1212313 1212577 265 2 [1] [1] 2 [ymgL] [ymgL]
* * ÷ NC_000913 1218730 1218796 67 2 [1] [1] 2 pdeG putative c‑di‑GMP phosphodiesterase PdeG
* * ÷ NC_000913 1219749 1219888 140 2 [1] [1] 2 ymgF/ymgD inner membrane protein YmgF/PF16456 family protein YmgD
* * ÷ NC_000913 1256167 1256251 85 2 [1] [0] 2 ycgV/ychF putative autotransporter adhesin YcgV/redox‑responsive ATPase YchF
* * ÷ NC_000913 1256906 1256920 15 2 [1] [1] 2 ychF redox‑responsive ATPase YchF
* * ÷ NC_000913 1293988 1294250 263 2 [1] [1] 2 [tdk] [tdk]
* * ÷ NC_000913 1332188 1332236 49 2 [1] [1] 2 topA DNA topoisomerase 1
* * ÷ NC_000913 1351151 1351273 123 3 [1] [0] 2 fabI/ycjD enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD
* * ÷ NC_000913 1362007 1362123 117 3 [1] [1] 2 puuR DNA‑binding transcriptional repressor PuuR
* * ÷ NC_000913 1404726 1404743 18 2 [1] [1] 2 [abgR] [abgR]
* * ÷ NC_000913 1413824 1413861 38 2 [1] [1] 2 ralR endodeoxyribonuclease toxin RalR
* * ÷ NC_000913 1450521 1450544 24 2 [1] [1] 2 tynA copper‑containing amine oxidase
* * ÷ NC_000913 1476678 1476814 137 2 [1] [1] 2 ydbD DUF2773 domain‑containing protein YdbD
* * ÷ NC_000913 1491865 1491865 1 3 [0] [0] 4 ydcA/yncP protein YdcA/protein YncP
* * ÷ NC_000913 1498247 1498288 42 2 [1] [1] 2 opgD glucans biosynthesis protein D
* * ÷ NC_000913 1500974 1501067 94 2 [0] [1] 2 tehA tellurite resistance protein
* * ÷ NC_000913 1530503 1530560 58 2 [1] [1] 2 [yncO] [yncO]
* * ÷ NC_000913 1572337 1572415 79 2 [1] [1] 2 [pqqL] [pqqL]
* * ÷ NC_000913 1578113 1578140 28 2 [1] [1] 2 yddA ABC transporter family protein YddA
* * ÷ NC_000913 1614862 1614899 38 2 [1] [0] 2 yneJ putative DNA‑binding transcriptional regulator YneJ
* * ÷ NC_000913 1624520 1624558 39 2 [1] [1] 2 ydeI/ydeJ BOF family protein YdeI/PF02464 family protein YdeJ
* * ÷ NC_000913 1646106 1646223 118 2 [1] [1] 2 [ydfV] [ydfV]
* * ÷ NC_000913 1665793 1665940 148 2 [1] [1] 3 clcB putative chloride:H(+) antiporter ClcB
* * ÷ NC_000913 1668449 1668496 48 2 [1] [1] 3 mlc DNA‑binding transcriptional repressor Mlc
* * ÷ NC_000913 1673588 1673631 44 2 [1] [0] 2 [mdtU] [mdtU]
* * ÷ NC_000913 1673675 1673755 81 2 [0] [1] 2 [mdtU] [mdtU]
* * ÷ NC_000913 1674387 1674482 96 2 [1] [0] 2 tqsA autoinducer 2 exporter
* * ÷ NC_000913 1677115 1677211 97 2 [1] [0] 2 pntA pyridine nucleotide transhydrogenase subunit alpha
* * ÷ NC_000913 1685464 1685600 137 2 [1] [1] 2 fumC fumarase C
* * ÷ NC_000913 1734500 1734546 47 3 [1] [1] 2 mepH peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase MepH
* * ÷ NC_000913 1765698 1765720 23 2 [1] [1] 2 ydiJ putative FAD‑linked oxidoreductase YdiJ
* * ÷ NC_000913 1777094 1777391 298 2 [1] [1] 2 [ydiF]–[ydiO] [ydiF],[ydiO]
* * ÷ NC_000913 1792744 1792771 28 2 [1] [0] 8 nlpC/btuD NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit
* * ÷ NC_000913 1818854 1818938 85 2 [1] [1] 2 chbR ChbR
* * ÷ NC_000913 1824541 1824552 12 2 [1] [0] 2 ves HutD family protein Ves
* * ÷ NC_000913 1857972 1858128 157 3 [1] [1] 2 ydjJ putative zinc‑binding dehydrogenase YdjJ
* * ÷ NC_000913 1863923 1864002 80 2 [1] [0] 2 yeaD putative aldose 1‑epimerase YeaD
* * ÷ NC_000913 1880958 1881061 104 2 [1] [1] 4 dmlR DNA‑binding transcriptional regulator DmlR
* * ÷ NC_000913 1890027 1890029 3 2 [0] [1] 2 yeaY Slp family lipoprotein YeaY
* * ÷ NC_000913 1893972 1894063 92 3 [1] [1] 2 yoaB/yoaC RutC family protein YoaB/DUF1889 domain‑containing protein YoaC
* * ÷ NC_000913 1905196 1905270 75 2 [1] [1] 2 [yobD] [yobD]
* * ÷ NC_000913 1917257 1917382 126 2 [1] [1] 2 letA intermembrane transport protein LetA
* * ÷ NC_000913 1921523 1921590 68 2 [1] [1] 2 rsmF 16S rRNA m(5)C1407 methyltransferase
* * ÷ NC_000913 1933213 1933348 136 2 [1] [1] 2 edd phosphogluconate dehydratase
* * ÷ NC_000913 1935984 1936060 77 2 [1] [1] 2 zwf NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase
* * ÷ NC_000913 1940878 1940891 14 2 [1] [1] 2 mepM peptidoglycan endopeptidase MepM
* * ÷ NC_000913 1946916 1946975 60 2 [1] [1] 2 ruvC crossover junction endodeoxyribonuclease RuvC
* * ÷ NC_000913 1978463 1979309 847 2 [1] [1] 2 insB5–insA5 insB5,insA5
* * ÷ NC_000913 2015950 2016021 72 2 [1] [1] 2 fliH flagellar biosynthesis protein FliH
* * ÷ NC_000913 2023879 2023892 14 2 [1] [1] 3 fliR/rcsA flagellar biosynthesis protein FliR/DNA‑binding transcriptional activator RcsA
* * ÷ NC_000913 2065067 2065189 123 2 [1] [1] 2 cobS cobalamin 5'‑phosphate synthase
* * ÷ NC_000913 2065445 2065489 45 2 [1] [1] 2 cobU cobinamide‑P guanylyltransferase/cobinamide kinase
* * ÷ NC_000913 2093176 2093257 82 2 [1] [1] 2 hisC histidinol‑phosphate aminotransferase
* * ÷ NC_000913 2095489 2095558 70 2 [1] [1] 2 hisA 1‑(5‑phosphoribosyl)‑5‑[(5‑ phosphoribosylamino)methylideneamino]imidazole‑4‑ carboxamide isomerase
* * ÷ NC_000913 2098690 2098727 38 2 [1] [1] 2 ugd UDP‑glucose 6‑dehydrogenase
* * ÷ NC_000913 2135290 2135433 144 2 [1] [1] 2 wzc protein‑tyrosine kinase Wzc
* * ÷ NC_000913 2136818 2136880 63 2 [1] [1] 2 wza outer membrane polysaccharide export protein Wza
* * ÷ NC_000913 2162624 2162766 143 3 [1] [1] 3 mdtD putative multidrug efflux pump MdtD
* * ÷ NC_000913 2166918 2166992 75 2 [1] [1] 3 trhP tRNA wobble base hydroxylation protein TrhP
* * ÷ NC_000913 2178294 2178435 142 2 [1] [1] 2 fbaB fructose‑bisphosphate aldolase class I
* * ÷ NC_000913 2194148 2194188 41 2 [1] [1] 2 [mrp] [mrp]
* * ÷ NC_000913 2231285 2231366 82 2 [1] [1] 2 yohK putative 3‑hydroxypropanoate export protein YohK
* * ÷ NC_000913 2254648 2254704 57 2 [1] [1] 2 rihB pyrimidine‑specific ribonucleoside hydrolase RihB
* * ÷ NC_000913 2273746 2273976 231 2 [1] [1] 2 yejA putative oligopeptide ABC transporter periplasmic binding protein YejA
* * ÷ NC_000913 2320765 2320810 46 2 [0] [1] 2 atoS sensor histidine kinase AtoS
* * ÷ NC_000913 2339046 2339148 103 2 [1] [1] 2 gyrA DNA gyrase subunit A
* * ÷ NC_000913 2341403 2341498 96 3 [1] [1] 3 yfaL putative autotransporter adhesin YfaL
* * ÷ NC_000913 2394141 2394174 34 2 [1] [1] 2 nuoL NADH:quinone oxidoreductase subunit L
* * ÷ NC_000913 2400021 2400042 22 2 [1] [0] 2 nuoG NADH:quinone oxidoreductase subunit G
* * ÷ NC_000913 2404307 2404370 64 2 [1] [1] 2 nuoB NADH:quinone oxidoreductase subunit B
* * ÷ NC_000913 2421821 2421879 59 2 [1] [1] 2 yfcH epimerase family protein YfcH
* * ÷ NC_000913 2478040 2478075 36 2 [1] [1] 3 dsdX D‑serine transporter
* * ÷ NC_000913 2480242 2480368 127 2 [1] [1] 3 dsdA D‑serine ammonia‑lyase
* * ÷ NC_000913 2519790 2519812 23 2 [0] [1] 2 gltX glutamate‑‑tRNA ligase
* * ÷ NC_000913 2571084 2571105 22 2 [1] [1] 2 eutE acetaldehyde dehydrogenase (acetylating) EutE
* * ÷ NC_000913 2583163 2583285 123 2 [1] [1] 2 nudK GDP‑mannose hydrolase
* * ÷ NC_000913 2605781 2605828 48 2 [1] [1] 2 hyfD hydrogenase 4 component D
* * ÷ NC_000913 2622839 2622853 15 2 [1] [1] 2 purN phosphoribosylglycinamide formyltransferase 1
* * ÷ NC_000913 2647411 2647434 24 2 [1] [1] 2 yfhM alpha2‑macroglobulin
* * ÷ NC_000913 2709372 2709428 57 2 [1] [1] 2 [rseA] [rseA]
* * ÷ NC_000913 2724726 2724755 30 2 [1] [1] 2 kgtP alpha‑ketoglutarate:H(+) symporter
* * ÷ NC_000913 2742574 2742667 94 2 [1] [1] 2 dgcN diguanylate cyclase DgcN
* * ÷ NC_000913 2778541 2778688 148 2 [1] [1] 2 ypjA adhesin‑like autotransporter YpjA
* * ÷ NC_000913 2792046 2792119 74 2 [1] [1] 2 gabD succinate‑semialdehyde dehydrogenase (NADP(+)) GabD
* * ÷ NC_000913 2906631 2906720 90 2 [1] [1] 2 [eno] [eno]
* * ÷ NC_000913 2909981 2910057 77 2 [1] [1] 2 mazG nucleoside triphosphate pyrophosphohydrolase
* * ÷ NC_000913 2944803 2944908 106 2 [1] [1] 2 csdE sulfur acceptor protein CsdE
* * ÷ NC_000913 2951008 2951177 170 2 [1] [1] 2 recD exodeoxyribonuclease V subunit RecD
* * ÷ NC_000913 2959699 2959850 152 2 [0] [1] 2 recC exodeoxyribonuclease V subunit RecC
* * ÷ NC_000913 2964033 2964119 87 2 [1] [1] 2 ppdA prepilin‑type N‑terminal cleavage/methylation domain‑containing protein PpdA
* * ÷ NC_000913 2969640 2969681 42 2 [1] [1] 2 [mutH] [mutH]
* * ÷ NC_000913 2992673 2992861 189 3 [1] [1] 3 ygeH putative transcriptional regulator YgeH
* * ÷ NC_000913 2992921 2993047 127 2 [0] [1] 2 ygeH putative transcriptional regulator YgeH
* * ÷ NC_000913 2994040 2994114 75 3 [1] [1] 2 ygeI/insD4 protein YgeI/IS2 insertion element protein InsB
* * ÷ NC_000913 3034339 3034516 178 2 [1] [1] 2 lysS lysine‑‑tRNA ligase
* * ÷ NC_000913 3046006 3046140 135 2 [0] [1] 2 ygfF/gcvP putative oxidoreductase YgfF/glycine decarboxylase
* * ÷ NC_000913 3084980 3085068 89 2 [1] [0] 2 speA biosynthetic arginine decarboxylase
* * ÷ NC_000913 3111157 3111206 50 2 [1] [1] 2 yghE putative type II secretion system L‑type protein YghE
* * ÷ NC_000913 3144571 3144767 197 2 [1] [1] 2 hybA hydrogenase 2 iron‑sulfur protein
* * ÷ NC_000913 3162628 3162669 42 2 [0] [1] 2 ftsP cell division protein FtsP
* * ÷ NC_000913 3222777 3222810 34 3 [1] [1] 2 ebgA evolved beta‑D‑galactosidase subunit alpha
* * ÷ NC_000913 3227268 3227407 140 2 [1] [1] 2 ygjI putative transporter YgjI
* * ÷ NC_000913 3247139 3247140 2 3 [1] [0] 2 exuR DNA‑binding transcriptional repressor ExuR
* * ÷ NC_000913 3275596 3275609 14 2 [1] [1] 2 garD GarD
* * ÷ NC_000913 3301500 3301505 6 2 [0] [1] 2 ubiU ubiquinone biosynthesis protein UbiU
* * ÷ NC_000913 3301584 3301595 12 3 [1] [1] 2 ubiU ubiquinone biosynthesis protein UbiU
* * ÷ NC_000913 3303305 3303327 23 2 [0] [1] 2 ubiV ubiquinone biosynthesis protein UbiV
* * ÷ NC_000913 3329175 3329269 95 2 [1] [1] 2 dacB peptidoglycan DD‑endopeptidase DacB
* * ÷ NC_000913 3335483 3335596 114 2 [1] [1] 2 murA UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase
* * ÷ NC_000913 3342767 3342812 46 2 [1] [0] 2 kdsC 3‑deoxy‑D‑manno‑octulosonate 8‑phosphate phosphatase KdsC
* * ÷ NC_000913 3373596 3373636 41 2 [0] [1] 2 nanA/nanR N‑acetylneuraminate lyase/NanR
* * ÷ NC_000913 3407738 3407787 50 2 [1] [1] 2 panF pantothenate:Na(+) symporter
* * ÷ NC_000913 3421167 3421251 85 2 [1] [1] 2 yhdX putative ABC transporter membrane subunit YhdX
* * ÷ NC_000913 3423851–3424233 3424477–3424245 13–627 3 [1] [1] 2 [rrlD] [rrlD]
* * ÷ NC_000913 3444767 3444769 3 2 [0] [1] 2 rpsE 30S ribosomal subunit protein S5
* * ÷ NC_000913 3455732 3455823 92 2 [1] [1] 2 gspC Type II secretion system protein GspC
* * ÷ NC_000913 3467648 3467678 31 2 [1] [1] 2 chiA endochitinase
* * ÷ NC_000913 3569656 3569756 101 2 [1] [1] 2 glgX limit dextrin alpha‑1,6‑glucohydrolase
* * ÷ NC_000913 3582031 3582184 154 2 [1] [1] 2 yhhZ putative endonuclease YhhZ
* * ÷ NC_000913 3607513 3607589 77 2 [1] [1] 2 zntA Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase
* * ÷ NC_000913 3608685 3608752 68 3 [1] [1] 2 [tusA] [tusA]
* * ÷ NC_000913 3609533 3609623 91 2 [1] [1] 2 yhhQ queuosine precursor transporter
* * ÷ NC_000913 3613666 3613757 92 2 [1] [1] 3 [nikA] [nikA]
* * ÷ NC_000913 3619311 3620985–3619330 20–1675 2 [1] [1] 2 rhsB rhs element protein RhsB
* * ÷ NC_000913 3633931 3633974 44 3 [1] [1] 2 yhiJ/yhiM DUF4049 domain‑containing protein YhiJ/inner membrane protein YhiM
* * ÷ NC_000913 3664896 3664971 76 2 [1] [1] 2 [gadY] [gadY]
* * ÷ NC_000913 3677985 3678123 139 3 [1] [1] 2 yhjG AsmA family protein YhjG
* * ÷ NC_000913 3694971 3694992 22 2 [1] [1] 2 bcsA cellulose synthase catalytic subunit
* * ÷ NC_000913 3799211 3799519 309 2 [1] [1] 2 [waaU]–[waaZ] [waaU],[waaZ]
* * ÷ NC_000913 3826566 3826625 60 2 [1] [1] 2 recG ATP‑dependent DNA helicase RecG
* * ÷ NC_000913 3894192 3894325 134 2 [1] [1] 2 yieE putative phosphopantetheinyl transferase
* * ÷ NC_000913 3908474 3908520 47 2 [1] [0] 2 pstB/pstA phosphate ABC transporter ATP binding subunit/phosphate ABC transporter membrane subunit PstA
* * ÷ NC_000913 3925008 3925043 36 2 [1] [1] 2 mnmG 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG
* * ÷ NC_000913 3985029 3985055 27 2 [1] [1] 2 aslA putative sulfatase AslA
* * ÷ NC_000913 3992800 3992846 47 2 [1] [1] 2 cyaA adenylate cyclase
* * ÷ NC_000913 4113630 4113692 63 2 [1] [1] 2 uspD universal stress protein D
* * ÷ NC_000913 4149250 4149337 88 2 [1] [1] 2 eptC phosphoethanolamine transferase EptC
* * ÷ NC_000913 4236102 4236205 104 2 [1] [1] 2 [yjbE] [yjbE]
* * ÷ NC_000913 4260660 4260766 107 2 [1] [1] 2 yjbM DUF2713 domain‑containing protein YjbM
* * ÷ NC_000913 4343564 4343793 230 2 [1] [1] 2 melB melibiose:H(+)/Na(+)/Li(+) symporter
* * ÷ NC_000913 4352398 4352468 71 2 [1] [1] 2 yjdJ/ghoS putative N‑acetyltransferase YjdJ/antitoxin of the GhoTS toxin‑antitoxin system
* * ÷ NC_000913 4380206 4380319 114 2 [1] [1] 2 frdB fumarate reductase iron‑sulfur protein
* * ÷ NC_000913 4383794 4383836 43 2 [1] [1] 2 epmA/yjeM EF‑P‑lysine lysyltransferase/putative transporter YjeM
* * ÷ NC_000913 4427810 4427878 69 2 [1] [0] 2 yjfZ/ytfB DUF2686 domain‑containing protein YjfZ/cell division protein YtfB
* * ÷ NC_000913 4453211 4453311 101 2 [1] [1] 2 ytfT galactofuranose ABC transporter putative membrane subunit YtfT
* * ÷ NC_000913 4462465 4462500 36 3 [1] [1] 2 nrdD anaerobic ribonucleoside‑triphosphate reductase
* * ÷ NC_000913 4467680 4467711 32 2 [1] [1] 2 mgtA Mg(2(+)) importing P‑type ATPase
* * ÷ NC_000913 4475815 4475897 83 2 [1] [1] 2 yjgL protein YjgL
* * ÷ NC_000913 4488348 4488381 34 2 [0] [1] 2 lptG lipopolysaccharide transport system protein LptG
* * ÷ NC_000913 4493762 4493810 49 2 [0] [1] 2 idnD L‑idonate 5‑dehydrogenase
* * ÷ NC_000913 4536218 4536249 32 2 [1] [1] 2 topAI/ythB toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/protein YthB
* * ÷ NC_000913 4548552 4548585 34 2 [1] [1] 2 fimG type 1 fimbriae minor subunit FimG
* * ÷ NC_000913 4555377 4555564 188 2 [1] [1] 2 [yjiC] [yjiC]
* * ÷ NC_000913 4563496 4563635 140 2 [1] [1] 2 [yjiK] [yjiK]
* * ÷ NC_000913 4567330 4567428 99 2 [1] [1] 2 mdtM multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter
* * ÷ NC_000913 4577254 4577361 108 3 [1] [1] 2 mcrC Type IV methyl‑directed restriction enzyme EcoKMcrBC subunit
* * ÷ NC_000913 4599200 4599244 45 2 [1] [1] 3 opgB phosphoglycerol transferase I

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 57276 =0 (0.000)6 (0.810) 6/316 0.2 100% intergenic (‑167/‑88) lptD/djlA lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA
?NC_000913 = 382590 NA (NA)noncoding (1331/1331 nt) IS2 repeat region
* ? NC_000913 279163 =NA (NA)11 (1.480) 7/316 0.1 91.7% noncoding (768/768 nt) IS1 repeat region
?NC_000913 2666074 = 1 (0.130)coding (640/1281 nt) csiE stationary phase‑inducible protein CsiE
* ? NC_000913 382179 =NA (NA)8 (1.090) 5/312 0.2 NA noncoding (920/1331 nt) IS2 repeat region
?NC_000913 = 382590 NA (NA)noncoding (1331/1331 nt) IS2 repeat region
* ? NC_000913 = 1469240NA (NA)8 (1.090) 6/312 0.1 100% noncoding (1/1331 nt) IS2 repeat region
?NC_000913 1792772 = 0 (0.000)intergenic (‑41/+37) nlpC/btuD NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit
* ? NC_000913 = 41351841 (0.130)6 (0.810) 6/316 0.2 85.7% coding (1350/2181 nt) katG catalase/hydroperoxidase HPI
?NC_000913 = 4499511 NA (NA)noncoding (1331/1331 nt) IS2 repeat region