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 44,301 (T)9→8 intergenic (+132/‑359) oprD_1 → / → czcR_2 Porin D/Transcriptional activator protein CzcR
RA 120,983 (T)9→8 intergenic (+280/+92) polA → / ← engB DNA polymerase I/putative GTP‑binding protein EngB
RA 179,484 T→C C316R (TGC→CGC)  CJ019_00182 → hypothetical protein
RA 1,806,746 G→C W15C (TGG→TGC)  yeiG → S‑formylglutathione hydrolase YeiG
RA 1,836,147 A→C V568G (GTG→GGG)  barA ← Signal transduction histidine‑protein kinaseBarA
RA 3,440,343 A→C S18R (AGC→CGC)  CJ019_03266 → hypothetical protein
RA 3,957,251 G→A P133L (CCG→CTG)  dmlR_13 ← HTH‑type transcriptional regulator DmlR
JC 4,257,352 +GCGGCCGC intergenic (‑281/+7) CJ019_03991 ← / ← CJ019_03994 putative ABC transporter ATP‑binding protein/hypothetical protein
RA 5,533,095 G→A R132C (CGC→TGC)  CJ019_05210 ← hypothetical protein
RA 5,756,060 (A)6→5 coding (781/834 nt) CJ019_05400 → hypothetical protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ ACB122 161227 161409–161315 89–183 16 [12] [14] 15 [uctC_1] [uctC_1]
* * ÷ ACB122 213562 213697 136 16 [14] [14] 15 [CJ019_00185] [CJ019_00185]
* * ÷ ACB122 277599 277692 94 15 [14] [13] 20 [betT2]–[tauD_2] [betT2],[tauD_2]
* * ÷ ACB122 517195 517327 133 18 [12] [14] 15 tyrS/birA Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA
* * ÷ ACB122 641262 641359 98 15 [14] [13] 16 [acoR_2] [acoR_2]
* * ÷ ACB122 674243 674380 138 15 [14] [12] 16 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ ACB122 1106762 1106951 190 16 [14] [14] 15 [hupB_1]–[rlmF] [hupB_1],[rlmF]
* * ÷ ACB122 1119643 1119715 73 15 [14] [6] 21 tdcG_2/gcvP_1 L‑serine dehydratase TdcG/Glycine dehydrogenase (decarboxylating)
* * ÷ ACB122 1304773 1304860 88 15 [14] [13] 15 CJ019_01223/rapA putative signaling protein/RNA polymerase‑associated protein RapA
* * ÷ ACB122 1376281 1376336 56 16 [13] [13] 19 CJ019_01289 hypothetical protein
* * ÷ ACB122 1396572 1396682 111 15 [14] [14] 16 [CJ019_01313]–[mcpU_1] [CJ019_01313],[mcpU_1]
* * ÷ ACB122 1457225 1457296 72 15 [13] [14] 15 [algX] [algX]
* * ÷ ACB122 1492467 1492581 115 16 [14] [11] 23 [CJ019_01406] [CJ019_01406]
* * ÷ ACB122 1585617 1585720 104 15 [14] [14] 15 CJ019_01493 hypothetical protein
* * ÷ ACB122 1608696 1608797 102 15 [14] [12] 15 CJ019_01513 hypothetical protein
* * ÷ ACB122 1697649 1697739 91 15 [14] [11] 15 [CJ019_01593] [CJ019_01593]
* * ÷ ACB122 1705098 1705186 89 15 [14] [14] 17 ppc/adk Phosphoenolpyruvate carboxylase/Adenylate kinase
* * ÷ ACB122 1914560 1914654 95 15 [7] [14] 15 [ppsC_1]–[CJ019_01830] [ppsC_1],[CJ019_01830]
* * ÷ ACB122 1935412 1935504 93 15 [14] [13] 16 CJ019_01850/yjcH_1 hypothetical protein/Inner membrane protein YjcH
* * ÷ ACB122 2288800 2288934 135 18 [14] [14] 16 [CJ019_02171] [CJ019_02171]
* * ÷ ACB122 2467207 2467225 19 30 [1] [9] 27 CJ019_02325/tal hypothetical protein/Transaldolase
* * ÷ ACB122 2830120 2830303 184 15 [14] [14] 15 [namA_3] [namA_3]
* * ÷ ACB122 2944350 2944469 120 16 [7] [14] 15 [CJ019_02782] [CJ019_02782]
* * ÷ ACB122 3046190 3046332 143 21 [11] [14] 15 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ ACB122 3069112 3069180 69 19 [14] [13] 15 CJ019_02881/CJ019_02882 hypothetical protein/putative protein
* * ÷ ACB122 3305699 3305806 108 15 [14] [14] 15 [CJ019_03107] [CJ019_03107]
* * ÷ ACB122 3459855 3459927 73 15 [12] [13] 18 CJ019_03284 hypothetical protein
* * ÷ ACB122 3769378 3769477 100 16 [14] [13] 15 CJ019_03581/CJ019_03582 hypothetical protein/hypothetical protein
* * ÷ ACB122 4043507 4043601 95 15 [14] [14] 18 [quiA] [quiA]
* * ÷ ACB122 4163782 4163890 109 16 [12] [14] 15 katG/leuO_2 Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO
* * ÷ ACB122 4330063 4330142 80 15 [14] [13] 15 [CJ019_04068] [CJ019_04068]
* * ÷ ACB122 4331652 4331788 137 17 [13] [13] 22 ribBA_2/potD_2 Riboflavin biosynthesis protein RibBA/Spermidine/putrescine‑binding periplasmicprotein
* * ÷ ACB122 4521575 4521700 126 15 [13] [14] 15 [CJ019_04289] [CJ019_04289]
* * ÷ ACB122 4732414 4732504 91 15 [11] [13] 15 [CJ019_04468] [CJ019_04468]
* * ÷ ACB122 4801894 4802299 406 15 [14] [14] 15 CJ019_04509/dsbD_2 hypothetical protein/Thiol:disulfide interchange protein DsbD
* * ÷ ACB122 4846376 4846518 143 15 [14] [14] 15 recR/ybaB Recombination protein RecR/Nucleoid‑associated protein YbaB
* * ÷ ACB122 4883522 4883635 114 15 [14] [14] 16 hyi/glxR Hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase
* * ÷ ACB122 4933622 4982636 49015 76 [0] [0] 54 [CJ019_04628]–[ycaD_3] [CJ019_04628],aar,CJ019_04630,iscS_3,ddl_2,CJ019_04633,flhB,fliR,fliQ,fliP,CJ019_04638,fliN,fliM,CJ019_04641,CJ019_04642,CJ019_04643,cheB_4,CJ019_04645,fliJ,fliI,CJ019_04648,fliG,fliF,fliE,atoC_3,atoS,norR_4,CJ019_04655,fliS,fliD,CJ019_04658,CJ019_04659,fabH,CJ019_04661,CJ019_04662,CJ019_04663,flgI,flgH,flgG,flgF,CJ019_04668,flgE,flgD,flgC,flgB,cheR2,cheV_3,CJ019_04675,CJ019_04676,CJ019_04677,ycgR,[ycaD_3]
* * ÷ ACB122 5156434 5156595 162 19 [11] [12] 17 [CJ019_04852] [CJ019_04852]
* * ÷ ACB122 5188812 5188930 119 16 [13] [14] 15 [CJ019_04882]–[pxpC_2] [CJ019_04882],[pxpC_2]
* * ÷ ACB122 5193573 5193699 127 16 [14] [13] 15 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ ACB122 5250741 5250871 131 17 [13] [14] 17 [CJ019_04947]–[CJ019_04948] [CJ019_04947],[CJ019_04948]
* * ÷ ACB122 5338398 5338517 120 16 [14] [14] 16 pgi_2/acsA_4 Glucose‑6‑phosphate isomerase/Acetyl‑coenzyme A synthetase
* * ÷ ACB122 5529661 5529755 95 16 [12] [14] 15 [nadE] [nadE]
* * ÷ ACB122 5548211 5548307 97 17 [12] [13] 15 CJ019_05226/CJ019_05227 hypothetical protein/hypothetical protein
* * ÷ ACB122 5674000 5674122 123 17 [14] [14] 16 CJ019_05328/CJ019_05329 hypothetical protein/hypothetical protein
* * ÷ ACB122 5890341 5890483 143 15 [14] [14] 16 CJ019_05517/czcA_3 hypothetical protein/Cobalt‑zinc‑cadmium resistance protein CzcA
* * ÷ ACB122 5895759 5895856 98 15 [14] [10] 15 [CJ019_05521] [CJ019_05521]
* * ÷ ACB122 6001754 6001850 97 15 [14] [14] 15 [mdtK]–[CJ019_05620] [mdtK],[CJ019_05620]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? ACB122 3359608 =31 (0.590)52 (1.010) 35/248 0.2 77.3% intergenic (+217/‑153) pikAII_1/CJ019_03160 Narbonolide/10‑deoxymethynolide synthase PikA2,modules 3 and 4/Tn3 family transposase ISPa42
?ACB122 4982637 = 0 (0.000)coding (1090/1335 nt) ycaD_3 putative MFS‑type transporter YcaD
* ? ACB122 = 337662458 (1.110)76 (1.490) 44/246 0.1 72.9% coding (499/546 nt) CJ019_03184 hypothetical protein
?ACB122 = 4933621 0 (0.000)coding (222/1041 nt) CJ019_04628 hypothetical protein