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 3,061,793 G→A S592N (AGC→AAC)  qedA_2 → Quinoprotein alcohol dehydrogenase (cytochromec)
RA 3,957,251 G→A P133L (CCG→CTG)  dmlR_13 ← HTH‑type transcriptional regulator DmlR
RA 4,914,804 G→A E474K (GAG→AAG)  CJ019_04610 → hypothetical protein
RA 5,757,239 (A)6→5 coding (781/834 nt) CJ019_05400 → hypothetical protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ KT2440 80666 80854 189 15 [11] [12] 14 [gcvA_2] [gcvA_2]
* * ÷ KT2440 87974 88060 87 14 [12] [11] 14 [CJ019_00094]–[CJ019_00095] [CJ019_00094],[CJ019_00095]
* * ÷ KT2440 161216 161417–161317 102–202 14 [11] [12] 14 [uctC_1] [uctC_1]
* * ÷ KT2440 213568 213687 120 14 [11] [12] 14 [CJ019_00185] [CJ019_00185]
* * ÷ KT2440 277590 277674 85 13 [12] [12] 15 [betT2]–[tauD_2] [betT2],[tauD_2]
* * ÷ KT2440 396277 396380 104 14 [11] [12] 13 msrA/CJ019_00365 Peptide methionine sulfoxide reductase MsrA/hypothetical protein
* * ÷ KT2440 492233 492359 127 13 [12] [11] 13 uvrY/potA_1 Response regulator UvrY/Spermidine/putrescine import ATP‑binding proteinPotA
* * ÷ KT2440 517195 517319 125 17 [12] [12] 13 tyrS/birA Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA
* * ÷ KT2440 661098 661230 133 13 [12] [12] 13 yfhM/CJ019_00619 Alpha‑2‑macroglobulin/hypothetical protein
* * ÷ KT2440 674267 674388 122 14 [10] [12] 14 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ KT2440 856898 856981 84 15 [12] [8] 15 [hemH]–[uraA] [hemH],[uraA]
* * ÷ KT2440 1006276 1006388 113 13 [12] [12] 15 [spuD_1] [spuD_1]
* * ÷ KT2440 1106826 1106965 140 13 [11] [11] 13 [hupB_1]–[rlmF] [hupB_1],[rlmF]
* * ÷ KT2440 1107876 1108018 143 14 [12] [12] 14 rlmF/valS Ribosomal RNA large subunit methyltransferase F/Valine‑‑tRNA ligase
* * ÷ KT2440 1304764 1304866 103 13 [12] [12] 14 [rapA] [rapA]
* * ÷ KT2440 1396617 1396678 62 14 [11] [12] 14 [mcpU_1] [mcpU_1]
* * ÷ KT2440 1457208 1457268 61 13 [12] [11] 13 [algL]–[algX] [algL],[algX]
* * ÷ KT2440 1492461 1492579 119 13 [10] [9] 13 [CJ019_01406] [CJ019_01406]
* * ÷ KT2440 1585616 1585702 87 15 [11] [12] 13 CJ019_01493 hypothetical protein
* * ÷ KT2440 1608669 1608801 133 13 [12] [11] 13 CJ019_01513 hypothetical protein
* * ÷ KT2440 1697643 1697797 155 18 [12] [12] 14 [CJ019_01593]–[CJ019_01594] [CJ019_01593],[CJ019_01594]
* * ÷ KT2440 1833102 1833175 74 13 [11] [12] 13 [resA_1]–[CJ019_01751] [resA_1],[CJ019_01751]
* * ÷ KT2440 1914560 1914645 86 15 [11] [11] 13 [ppsC_1]–[CJ019_01830] [ppsC_1],[CJ019_01830]
* * ÷ KT2440 1923407 1923505 99 13 [11] [11] 14 [apeB] [apeB]
* * ÷ KT2440 1940825 1940936 112 13 [12] [12] 13 CJ019_01857/gshAB hypothetical protein/Glutathione biosynthesis bifunctional proteinGshAB
* * ÷ KT2440 2043568 2043715 148 13 [12] [12] 13 smrA/CJ019_01939 putative DNA endonuclease SmrA/hypothetical protein
* * ÷ KT2440 2234320 2234415 96 13 [12] [10] 13 gltX/PP_RS08750 Glutamate‑‑tRNA ligase/tRNA‑Val
* * ÷ KT2440 2287014 2287104 91 13 [12] [8] 13 [CJ019_02168]–[CJ019_02169] [CJ019_02168],[CJ019_02169]
* * ÷ KT2440 2288844 2288944 101 13 [12] [12] 14 [CJ019_02172] [CJ019_02172]
* * ÷ KT2440 2942842 2942879 38 17 [10] [12] 14 CJ019_02780/CJ019_02781 hypothetical protein/8‑oxoguanine deaminase
* * ÷ KT2440 3046190 3046318 129 13 [9] [12] 14 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ KT2440 3145253 3145399 147 15 [11] [11] 13 livH_4 High‑affinity branched‑chain amino acidtransport system permease protein LivH
* * ÷ KT2440 3305672 3305834 163 14 [12] [12] 13 [CJ019_03107] [CJ019_03107]
* * ÷ KT2440 3459844 3459932 89 13 [12] [11] 14 CJ019_03284 hypothetical protein
* * ÷ KT2440 3944694 3944835 142 15 [11] [12] 13 CJ019_03729/CJ019_03730 hypothetical protein/hypothetical protein
* * ÷ KT2440 4163782 4163903 122 13 [11] [12] 14 katG/leuO_2 Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO
* * ÷ KT2440 4333686 4333800 115 13 [9] [10] 13 ribBA_2/potD_2 Riboflavin biosynthesis protein RibBA/Spermidine/putrescine‑binding periplasmicprotein
* * ÷ KT2440 4346795 4346879 85 15 [9] [12] 13 nmoA Nitronate monooxygenase
* * ÷ KT2440 4497401 4497480 80 14 [12] [12] 13 [dsrE] [dsrE]
* * ÷ KT2440 4523614 4523710 97 13 [12] [11] 13 [CJ019_04289] [CJ019_04289]
* * ÷ KT2440 4668926 4669036 111 13 [12] [12] 13 [btuB_4] [btuB_4]
* * ÷ KT2440 4734452 4734506 55 15 [11] [11] 14 gltA/CJ019_04468 Citrate synthase/hypothetical protein
* * ÷ KT2440 4801773 4802139 367 13 [11] [11] 13 CJ019_04509/dsbD_2 hypothetical protein/Thiol:disulfide interchange protein DsbD
* * ÷ KT2440 4842391 4842450 60 14 [11] [12] 13 [CJ019_04539] [CJ019_04539]
* * ÷ KT2440 4846224 4846344 121 15 [11] [12] 13 recR/ybaB Recombination protein RecR/Nucleoid‑associated protein YbaB
* * ÷ KT2440 4883387 4883530 144 13 [10] [11] 13 [glxR] [glxR]
* * ÷ KT2440 4944723 4944852 130 13 [12] [12] 13 [CJ019_04642] [CJ019_04642]
* * ÷ KT2440 5156300 5156458 159 13 [12] [11] 16 [CJ019_04852] [CJ019_04852]
* * ÷ KT2440 5193413 5193528 116 17 [12] [11] 13 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ KT2440 5250642 5250717 76 13 [12] [7] 13 [CJ019_04947] [CJ019_04947]
* * ÷ KT2440 5267841 5267888 48 14 [12] [11] 13 rlmG/CJ019_04963 Ribosomal RNA large subunit methyltransferase G/hypothetical protein
* * ÷ KT2440 5331838 5331936 99 14 [12] [10] 13 zraR/pcnB Transcriptional regulatory protein ZraR/Poly(A) polymerase I
* * ÷ KT2440 5433076 5433165 90 13 [12] [8] 14 rluE Ribosomal large subunit pseudouridine synthaseE
* * ÷ KT2440 5549384 5549513 130 18 [10] [12] 13 CJ019_05226/CJ019_05227 hypothetical protein/hypothetical protein
* * ÷ KT2440 5646783 5646858 76 17 [11] [12] 14 CJ019_05302/CJ019_05303 hypothetical protein/hypothetical protein
* * ÷ KT2440 5665435 5665548 114 15 [10] [8] 13 CJ019_05320/CJ019_05321 hypothetical protein/hypothetical protein
* * ÷ KT2440 5675198 5675285 88 13 [12] [12] 16 CJ019_05328/CJ019_05329 hypothetical protein/hypothetical protein
* * ÷ KT2440 5780274 5780433 160 13 [12] [12] 13 [selO]–[trxC] [selO],[trxC]
* * ÷ KT2440 5810655 5810819 165 13 [12] [11] 13 [pilT] [pilT]
* * ÷ KT2440 5891533 5891667 135 15 [10] [11] 13 CJ019_05517/czcA_3 hypothetical protein/Cobalt‑zinc‑cadmium resistance protein CzcA
* * ÷ KT2440 5896943 5897025 83 17 [12] [8] 13 [CJ019_05521] [CJ019_05521]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? KT2440 4918800 =0 (0.000)41 (0.940) 18/246 1.1 100% coding (7/789 nt) soj_1 Sporulation initiation inhibitor protein Soj
?KT2440 = 5539492 NA (NA)intergenic (‑358/+71) CJ019_03622/rlmB IS110 family transposase ISPpu9/23S rRNA (guanosine‑2'‑O‑)‑methyltransferaseRlmB
* ? KT2440 = 49188010 (0.000)48 (1.100) 34/248 0.1 100% coding (6/789 nt) soj_1 Sporulation initiation inhibitor protein Soj
?KT2440 5216408 = NA (NA)intergenic (‑50/+386) rhaS_5/CJ019_01212 HTH‑type transcriptional activator RhaS/IS110 family transposase ISPpu9