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 1,805,331 C→T R48H (CGC→CAC)  dmlR_4 ← HTH‑type transcriptional regulator DmlR
RA 3,061,793 G→A S592N (AGC→AAC)  qedA_2 → Quinoprotein alcohol dehydrogenase (cytochromec)
RA 3,440,343 A→C S18R (AGC→CGC)  CJ019_03266 → hypothetical protein
RA 3,712,756 T→C intergenic (‑299/‑48) paaF_1 ← / → yrdA_3 2,3‑dehydroadipyl‑CoA hydratase/Protein YrdA
RA 3,956,826 G→C H275D (CAT→GAT)  dmlR_13 ← HTH‑type transcriptional regulator DmlR
RA 4,959,063 G→A Q40* (CAG→TAG)  norR_4 ← Anaerobic nitric oxide reductase transcriptionregulator NorR
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 87966 88062 97 17 [16] [15] 17 [CJ019_00094]–[CJ019_00095] [CJ019_00094],[CJ019_00095]
* * ÷ KT2440 161232 161394–161315 84–163 20 [12] [16] 17 [uctC_1] [uctC_1]
* * ÷ KT2440 213571 213677 107 17 [16] [12] 19 [CJ019_00185] [CJ019_00185]
* * ÷ KT2440 277604 277690 87 17 [14] [16] 18 [tauD_2] [tauD_2]
* * ÷ KT2440 329227 329404 178 17 [15] [16] 17 [CJ019_00302] [CJ019_00302]
* * ÷ KT2440 517190 517329 140 26 [14] [16] 17 tyrS/birA Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA
* * ÷ KT2440 641268 641357 90 17 [16] [14] 17 [acoR_2] [acoR_2]
* * ÷ KT2440 661096 661208 113 18 [16] [16] 18 yfhM/CJ019_00619 Alpha‑2‑macroglobulin/hypothetical protein
* * ÷ KT2440 674293 674417 125 17 [16] [15] 17 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ KT2440 1000522 1000659 138 18 [15] [15] 17 [fecA_1]–[osmV] [fecA_1],[osmV]
* * ÷ KT2440 1006235 1006363 129 21 [16] [14] 18 [spuD_1] [spuD_1]
* * ÷ KT2440 1360592 1361010 419 17 [16] [16] 17 [CJ019_01275] [CJ019_01275]
* * ÷ KT2440 1376260 1376336 77 18 [16] [12] 17 CJ019_01289 hypothetical protein
* * ÷ KT2440 1396601 1396679 79 17 [15] [14] 21 [mcpU_1] [mcpU_1]
* * ÷ KT2440 1499933 1500059 127 17 [13] [16] 17 [petC]–[sspA] [petC],[sspA]
* * ÷ KT2440 1537410 1537570 161 19 [15] [16] 18 [mdfA] [mdfA]
* * ÷ KT2440 1585631 1585709 79 20 [16] [16] 17 CJ019_01493 hypothetical protein
* * ÷ KT2440 1608700 1608801 102 17 [16] [16] 17 CJ019_01513 hypothetical protein
* * ÷ KT2440 1697661 1697728 68 21 [16] [16] 22 [CJ019_01593] [CJ019_01593]
* * ÷ KT2440 1835810 1835948 139 21 [16] [16] 17 barA Signal transduction histidine‑protein kinaseBarA
* * ÷ KT2440 1914560 1914679 120 20 [15] [15] 18 [ppsC_1]–[CJ019_01830] [ppsC_1],[CJ019_01830]
* * ÷ KT2440 2043583 2043714 132 18 [14] [16] 17 smrA/CJ019_01939 putative DNA endonuclease SmrA/hypothetical protein
* * ÷ KT2440 2275808 2275849 42 17 [13] [16] 17 yodB_1/PP_RS08750 Cytochrome b561/tRNA‑Val
* * ÷ KT2440 2288815 2288934 120 19 [16] [13] 19 CJ019_02171/CJ019_02172 hypothetical protein/hypothetical protein
* * ÷ KT2440 2471403 2471562 160 17 [15] [14] 17 [CJ019_02330] [CJ019_02330]
* * ÷ KT2440 3046204 3046341 138 17 [16] [15] 17 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ KT2440 3145274 3145406 133 17 [15] [14] 18 livH_4 High‑affinity branched‑chain amino acidtransport system permease protein LivH
* * ÷ KT2440 3280261 3280373 113 20 [16] [16] 17 [CJ019_03085]–[xthA_2] [CJ019_03085],[xthA_2]
* * ÷ KT2440 3305698 3305824 127 18 [16] [16] 17 [CJ019_03107] [CJ019_03107]
* * ÷ KT2440 3459848 3459932 85 17 [15] [16] 21 CJ019_03284 hypothetical protein
* * ÷ KT2440 3769383 3769498 116 17 [15] [15] 20 CJ019_03581/CJ019_03582 hypothetical protein/hypothetical protein
* * ÷ KT2440 3944687 3944809 123 19 [14] [16] 17 CJ019_03729/CJ019_03730 hypothetical protein/hypothetical protein
* * ÷ KT2440 4163777 4163893 117 17 [16] [16] 22 katG/leuO_2 Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO
* * ÷ KT2440 4346803 4346856 54 22 [14] [16] 17 nmoA Nitronate monooxygenase
* * ÷ KT2440 4734442 4734532 91 17 [16] [16] 17 [CJ019_04468] [CJ019_04468]
* * ÷ KT2440 4846222 4846391 170 17 [16] [16] 17 recR/ybaB Recombination protein RecR/Nucleoid‑associated protein YbaB
* * ÷ KT2440 4944718 4944850 133 18 [16] [16] 17 [CJ019_04642] [CJ019_04642]
* * ÷ KT2440 5156292 5156447 156 20 [14] [11] 18 [CJ019_04852] [CJ019_04852]
* * ÷ KT2440 5188678 5188774 97 17 [16] [16] 17 [CJ019_04882]–[pxpC_2] [CJ019_04882],[pxpC_2]
* * ÷ KT2440 5193425 5193551 127 17 [16] [15] 17 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ KT2440 5250628 5250735 108 18 [16] [15] 17 [CJ019_04947]–[CJ019_04948] [CJ019_04947],[CJ019_04948]
* * ÷ KT2440 5478942 5479030 89 17 [16] [14] 17 purH/purD Bifunctional purine biosynthesis protein PurH/Phosphoribosylamine‑‑glycine ligase
* * ÷ KT2440 5500255 5500477 223 17 [16] [16] 20 [CJ019_05176] [CJ019_05176]
* * ÷ KT2440 5530838 5530944 107 18 [14] [15] 20 [nadE] [nadE]
* * ÷ KT2440 5549388 5549498 111 17 [16] [16] 17 CJ019_05226/CJ019_05227 hypothetical protein/hypothetical protein
* * ÷ KT2440 5646788 5646860 73 17 [14] [13] 20 CJ019_05302/CJ019_05303 hypothetical protein/hypothetical protein
* * ÷ KT2440 5675214 5675291 78 20 [15] [16] 17 CJ019_05328/CJ019_05329 hypothetical protein/hypothetical protein
* * ÷ KT2440 5891549 5891661 113 17 [16] [16] 17 CJ019_05517/czcA_3 hypothetical protein/Cobalt‑zinc‑cadmium resistance protein CzcA
* * ÷ KT2440 5896960 5897035 76 17 [16] [16] 17 [CJ019_05521] [CJ019_05521]
* * ÷ KT2440 6074772 6074885 114 17 [12] [15] 19 [yeaD_2]–[CJ019_05690] [yeaD_2],[CJ019_05690]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? KT2440 4918800 =0 (0.000)80 (1.440) 30/248 0.5 100% 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 = 49188011 (0.020)60 (1.070) 34/250 0.3 98.4% 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