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 1,804,932 C→T S181N (AGC→AAC)  dmlR_4 ← HTH‑type transcriptional regulator DmlR
RA 3,957,240 C→T G137R (GGG→AGG)  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 5,756,060 (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 87951 88060 110 22 [18] [20] 28 [CJ019_00094]–[CJ019_00095] [CJ019_00094],[CJ019_00095]
* * ÷ ACB122 161211 161449–161315 105–239 22 [21] [21] 23 [uctC_1] [uctC_1]
* * ÷ ACB122 213565 213692 128 24 [20] [20] 22 [CJ019_00185] [CJ019_00185]
* * ÷ ACB122 277590 277677 88 23 [20] [20] 23 [betT2]–[tauD_2] [betT2],[tauD_2]
* * ÷ ACB122 329258 329389 132 22 [21] [21] 22 CJ019_00302/CJ019_00303 hypothetical protein/hypothetical protein
* * ÷ ACB122 517175 517295 121 22 [21] [20] 23 [tyrS] [tyrS]
* * ÷ ACB122 674240 674389 150 22 [20] [21] 22 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ ACB122 686592 686699 108 25 [21] [21] 27 metR_1 HTH‑type transcriptional regulator MetR
* * ÷ ACB122 711469 711557 89 24 [21] [21] 22 [thiO]–[aam] [thiO],[aam]
* * ÷ ACB122 789837 789965 129 25 [17] [21] 22 [CJ019_00751] [CJ019_00751]
* * ÷ ACB122 1304754 1304873 120 22 [16] [21] 26 [rapA] [rapA]
* * ÷ ACB122 1360632 1360977 346 24 [19] [21] 22 CJ019_01275 hypothetical protein
* * ÷ ACB122 1376293 1376321 29 24 [12] [18] 27 CJ019_01289 hypothetical protein
* * ÷ ACB122 1396593 1396679 87 22 [19] [16] 26 [mcpU_1] [mcpU_1]
* * ÷ ACB122 1457206 1457298 93 24 [20] [21] 22 [algL]–[algX] [algL],[algX]
* * ÷ ACB122 1585608 1585716 109 22 [20] [21] 23 CJ019_01493 hypothetical protein
* * ÷ ACB122 1608705 1608801 97 22 [20] [21] 22 CJ019_01513 hypothetical protein
* * ÷ ACB122 1632581 1632684 104 23 [21] [21] 31 czcR_4/CJ019_01536 Transcriptional activator protein CzcR/hypothetical protein
* * ÷ ACB122 1697643 1697740 98 23 [20] [21] 22 [CJ019_01593] [CJ019_01593]
* * ÷ ACB122 1705087 1705197 111 22 [19] [21] 22 ppc/adk Phosphoenolpyruvate carboxylase/Adenylate kinase
* * ÷ ACB122 1914560 1914655 96 28 [19] [21] 25 [ppsC_1]–[CJ019_01830] [ppsC_1],[CJ019_01830]
* * ÷ ACB122 1923412 1923514 103 22 [21] [21] 22 [apeB] [apeB]
* * ÷ ACB122 1940791 1940942 152 23 [20] [20] 23 [CJ019_01857] [CJ019_01857]
* * ÷ ACB122 2288810 2288948 139 25 [20] [21] 22 [CJ019_02171]–[CJ019_02172] [CJ019_02171],[CJ019_02172]
* * ÷ ACB122 2646570 2646751 182 22 [20] [21] 22 [CJ019_02505]–[CJ019_02506] [CJ019_02505],[CJ019_02506]
* * ÷ ACB122 3046188 3046324 137 23 [21] [20] 23 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ ACB122 3769378 3769482 105 22 [17] [19] 22 CJ019_03581/CJ019_03582 hypothetical protein/hypothetical protein
* * ÷ ACB122 4331637 4331757 121 22 [20] [16] 24 ribBA_2/potD_2 Riboflavin biosynthesis protein RibBA/Spermidine/putrescine‑binding periplasmicprotein
* * ÷ ACB122 4344773 4344835 63 23 [21] [21] 26 nmoA Nitronate monooxygenase
* * ÷ ACB122 4732426 4732488 63 23 [19] [20] 23 gltA/CJ019_04468 Citrate synthase/hypothetical protein
* * ÷ ACB122 4790364 4790451 88 22 [21] [17] 22 [qseC_3] [qseC_3]
* * ÷ ACB122 4801872 4802309 438 22 [21] [21] 22 CJ019_04509/dsbD_2 hypothetical protein/Thiol:disulfide interchange protein DsbD
* * ÷ ACB122 4846366 4846501 136 24 [17] [18] 27 recR/ybaB Recombination protein RecR/Nucleoid‑associated protein YbaB
* * ÷ ACB122 4944855 4944988 134 24 [21] [18] 22 [CJ019_04642] [CJ019_04642]
* * ÷ ACB122 4955866 4977755 21890 74 [1] [0] 77 [atoC_3]–flgB [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
* * ÷ ACB122 5156444 5156590 147 23 [21] [19] 23 [CJ019_04852] [CJ019_04852]
* * ÷ ACB122 5188786 5188914 129 26 [20] [21] 22 [CJ019_04882]–[pxpC_2] [CJ019_04882],[pxpC_2]
* * ÷ ACB122 5193577 5193701 125 22 [15] [21] 27 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ ACB122 5250761 5250877 117 22 [21] [14] 22 [CJ019_04947]–[CJ019_04948] [CJ019_04947],[CJ019_04948]
* * ÷ ACB122 5431854 5432001 148 22 [21] [19] 22 rluE Ribosomal large subunit pseudouridine synthaseE
* * ÷ ACB122 5499083 5499315 233 22 [21] [21] 22 [CJ019_05176] [CJ019_05176]
* * ÷ ACB122 5550448 5550605 158 22 [21] [21] 23 CJ019_05227/purA hypothetical protein/Adenylosuccinate synthetase
* * ÷ ACB122 5645609 5645681 73 27 [18] [21] 23 CJ019_05302/CJ019_05303 hypothetical protein/hypothetical protein
* * ÷ ACB122 5673985 5674150 166 23 [20] [21] 25 [CJ019_05329] [CJ019_05329]
* * ÷ ACB122 5890320 5890474 155 22 [21] [20] 23 CJ019_05517/czcA_3 hypothetical protein/Cobalt‑zinc‑cadmium resistance protein CzcA
* * ÷ ACB122 5895764 5895856 93 22 [19] [14] 22 [CJ019_05521] [CJ019_05521]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? ACB122 3359610 =61 (0.890)77 (1.120) 43/254 0.3 71.6% intergenic (+219/‑151) pikAII_1/CJ019_03160 Narbonolide/10‑deoxymethynolide synthase PikA2,modules 3 and 4/Tn3 family transposase ISPa42
?ACB122 4977756 = 0 (0.000)intergenic (‑238/+84) flgB/cheR2 Flagellar basal body rod protein FlgB/Chemotaxis protein methyltransferase Cher2
* ? ACB122 = 337662280 (1.160)70 (1.040) 39/248 0.4 63.9% coding (501/546 nt) CJ019_03184 hypothetical protein
?ACB122 = 4955865 1 (0.010)coding (538/1356 nt) atoC_3 Regulatory protein AtoC