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 515,063 G→A D236D (GAC→GAT)  mepM ← Murein DD‑endopeptidase MepM
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 3,502,855 C→T P476S (CCG→TCG)  vgrG1_1 → Actin cross‑linking toxin VgrG1
RA 3,957,351 G→A H100Y (CAC→TAC)  dmlR_13 ← HTH‑type transcriptional regulator DmlR
RA 5,023,365 T→C S40P (TCT→CCT)  proP_6 → Proline/betaine transporter
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 75480 75553 74 12 [11] [9] 13 aroE_1/CJ019_00080 Shikimate dehydrogenase (NADP( ))/hypothetical protein
* * ÷ KT2440 88000 88052 53 14 [8] [10] 12 [CJ019_00094]–[CJ019_00095] [CJ019_00094],[CJ019_00095]
* * ÷ KT2440 161234 161419–161315 82–186 12 [8] [10] 12 [uctC_1] [uctC_1]
* * ÷ KT2440 213570 213704 135 12 [10] [11] 12 [CJ019_00185] [CJ019_00185]
* * ÷ KT2440 277595 277689 95 12 [10] [11] 12 [betT2]–[tauD_2] [betT2],[tauD_2]
* * ÷ KT2440 329236 329363 128 14 [11] [11] 12 [CJ019_00302] [CJ019_00302]
* * ÷ KT2440 346096 346227 132 12 [11] [11] 14 [btuD_1] [btuD_1]
* * ÷ KT2440 517190 517279 90 21 [11] [11] 12 tyrS/birA Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA
* * ÷ KT2440 607311 607397 87 12 [11] [8] 13 dxs/ispA 1‑deoxy‑D‑xylulose‑5‑phosphate synthase/Farnesyl diphosphate synthase
* * ÷ KT2440 641273 641359 87 12 [11] [11] 13 [acoR_2] [acoR_2]
* * ÷ KT2440 674282 674380 99 13 [10] [11] 13 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ KT2440 789846 789977 132 12 [11] [11] 12 [CJ019_00751] [CJ019_00751]
* * ÷ KT2440 1119643 1119715 73 13 [11] [8] 15 tdcG_2/gcvP_1 L‑serine dehydratase TdcG/Glycine dehydrogenase (decarboxylating)
* * ÷ KT2440 1131566 1131652 87 12 [11] [10] 12 arcC1/arcB_1 Carbamate kinase 1/Ornithine carbamoyltransferase, catabolic
* * ÷ KT2440 1304781 1304868 88 12 [10] [11] 13 [rapA] [rapA]
* * ÷ KT2440 1376295 1376336 42 12 [10] [6] 12 CJ019_01289 hypothetical protein
* * ÷ KT2440 1396584 1396686 103 12 [11] [11] 12 [CJ019_01313]–[mcpU_1] [CJ019_01313],[mcpU_1]
* * ÷ KT2440 1402152 1402195 44 13 [11] [11] 12 ydgA/nadA Protein YdgA/Quinolinate synthase A
* * ÷ KT2440 1411242 1411325 84 12 [11] [11] 14 [purC] [purC]
* * ÷ KT2440 1457212 1457305 94 12 [9] [11] 12 [algL]–[algX] [algL],[algX]
* * ÷ KT2440 1492461 1492581 121 13 [11] [11] 20 [CJ019_01406] [CJ019_01406]
* * ÷ KT2440 1499935 1500056 122 12 [11] [11] 12 [petC]–[sspA] [petC],[sspA]
* * ÷ KT2440 1585616 1585700 85 12 [10] [11] 14 CJ019_01493 hypothetical protein
* * ÷ KT2440 1608699 1608836 138 13 [11] [11] 12 [CJ019_01513]–[CJ019_01514] [CJ019_01513],[CJ019_01514]
* * ÷ KT2440 1914560 1914695 136 15 [10] [11] 15 [ppsC_1]–[CJ019_01830] [ppsC_1],[CJ019_01830]
* * ÷ KT2440 1923416 1923542 127 12 [11] [11] 13 [apeB] [apeB]
* * ÷ KT2440 2041845 2041958 114 12 [11] [11] 15 [CJ019_01936] [CJ019_01936]
* * ÷ KT2440 2275811 2275839 29 14 [11] [1] 12 yodB_1/PP_RS08750 Cytochrome b561/tRNA‑Val
* * ÷ KT2440 2288826 2288963 138 13 [11] [11] 14 [CJ019_02172] [CJ019_02172]
* * ÷ KT2440 2471448 2471534 87 13 [11] [9] 12 [CJ019_02330] [CJ019_02330]
* * ÷ KT2440 3046190 3046357 168 13 [9] [11] 13 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ KT2440 3145288 3145406 119 12 [11] [11] 13 livH_4 High‑affinity branched‑chain amino acidtransport system permease protein LivH
* * ÷ KT2440 3459852 3459965 114 12 [10] [10] 12 [CJ019_03284] [CJ019_03284]
* * ÷ KT2440 3769404 3769486 83 12 [11] [11] 12 CJ019_03581/CJ019_03582 hypothetical protein/hypothetical protein
* * ÷ KT2440 3944707 3944839 133 12 [9] [11] 12 CJ019_03729/CJ019_03730 hypothetical protein/hypothetical protein
* * ÷ KT2440 4163802 4163861 60 16 [11] [9] 17 katG/leuO_2 Catalase‑peroxidase/HTH‑type transcriptional regulator LeuO
* * ÷ KT2440 4332083 4332183 101 15 [10] [10] 14 [CJ019_04068] [CJ019_04068]
* * ÷ KT2440 4346798 4346868 71 14 [11] [11] 13 nmoA Nitronate monooxygenase
* * ÷ KT2440 4497391 4497470 80 12 [11] [10] 12 [xanP]–[dsrE] [xanP],[dsrE]
* * ÷ KT2440 4523639 4523734 96 12 [10] [11] 12 [CJ019_04289] [CJ019_04289]
* * ÷ KT2440 4668935 4669033 99 12 [11] [11] 12 [btuB_4] [btuB_4]
* * ÷ KT2440 4734431 4734566 136 12 [11] [11] 15 [CJ019_04468] [CJ019_04468]
* * ÷ KT2440 4883342 4883485 144 12 [11] [7] 13 [hyi] [hyi]
* * ÷ KT2440 4944750 4944881 132 12 [11] [11] 12 [CJ019_04642] [CJ019_04642]
* * ÷ KT2440 5186571 5186636 66 12 [6] [10] 12 CJ019_04880/CJ019_04881 hypothetical protein/hypothetical protein
* * ÷ KT2440 5188683 5188749 67 12 [10] [11] 12 [CJ019_04882]–[pxpC_2] [CJ019_04882],[pxpC_2]
* * ÷ KT2440 5193445 5193559 115 13 [9] [10] 12 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ KT2440 5250610 5250731 122 12 [11] [11] 12 [CJ019_04947]–[CJ019_04948] [CJ019_04947],[CJ019_04948]
* * ÷ KT2440 5453361 5453435 75 12 [10] [11] 12 [lptE]–[holA] [lptE],[holA]
* * ÷ KT2440 5500277 5500467 191 13 [11] [11] 13 [CJ019_05176] [CJ019_05176]
* * ÷ KT2440 5530840 5530931 92 12 [11] [11] 12 [nadE] [nadE]
* * ÷ KT2440 5551616 5551781 166 12 [11] [11] 12 CJ019_05227/purA hypothetical protein/Adenylosuccinate synthetase
* * ÷ KT2440 5587896 5588023 128 13 [11] [9] 15 CJ019_05260/thiC hypothetical protein/Phosphomethylpyrimidine synthase
* * ÷ KT2440 5675184 5675324 141 12 [10] [10] 12 [CJ019_05329] [CJ019_05329]
* * ÷ KT2440 5891541 5891639 99 12 [11] [11] 12 CJ019_05517/czcA_3 hypothetical protein/Cobalt‑zinc‑cadmium resistance protein CzcA
* * ÷ KT2440 5896971 5897046 76 13 [11] [9] 12 [CJ019_05521] [CJ019_05521]
* * ÷ KT2440 6021705 6021786 82 12 [11] [11] 12 ycaD_4/puuC_2 putative MFS‑type transporter YcaD/NADP/NAD‑dependent aldehyde dehydrogenase PuuC
* * ÷ KT2440 6074777 6074868 92 16 [9] [10] 12 [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)55 (1.220) 21/248 0.8 100% 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)53 (1.160) 30/250 0.3 100% 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