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
JC 4,257,335 +GCGGCCGC intergenic (‑281/+7) CJ019_03991 ← / ← CJ019_03994 putative ABC transporter ATP‑binding protein/hypothetical protein
RA 5,386,500 C→A intergenic (‑509/+1142) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,503 C→G intergenic (‑512/+1139) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,506 1 bp→GT intergenic (‑515/+1136) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,507 +C intergenic (‑516/+1135) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,510 2 bp→TA intergenic (‑519/+1131) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,513 +AA intergenic (‑522/+1129) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,514 T→C intergenic (‑523/+1128) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,517 G→C intergenic (‑526/+1125) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,519 G→A intergenic (‑528/+1123) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,386,811 C→T intergenic (‑820/+831) CJ019_05070 ← / ← nptII hypothetical protein/neomycin phosphotransferase
RA 5,390,302 +T coding (396/1666 nt) ligH → 10‑formyltetrahydrofolate synthetase
JC 5,391,707 +54 bp intergenic (+124/‑1253) ligH → / → CJ019_05072 10‑formyltetrahydrofolate synthetase/hypothetical protein
RA 5,760,598 (A)6→5 coding (781/834 nt) CJ019_05400 → hypothetical protein

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ ACB143 87992 88050 59 25 [20] [18] 23 [CJ019_00094]–[CJ019_00095] [CJ019_00094],[CJ019_00095]
* * ÷ ACB143 161211 161403–161315 105–193 23 [21] [20] 22 [uctC_1] [uctC_1]
* * ÷ ACB143 277557 277694 138 22 [20] [21] 22 [betT2]–[tauD_2] [betT2],[tauD_2]
* * ÷ ACB143 517190 517295 106 26 [15] [18] 24 tyrS/birA Tyrosine‑‑tRNA ligase/Bifunctional ligase/repressor BirA
* * ÷ ACB143 661083 661239 157 22 [18] [21] 22 [yfhM]–[CJ019_00619] [yfhM],[CJ019_00619]
* * ÷ ACB143 674231 674380 150 22 [21] [16] 23 [nimR_1]–[mcpH_2] [nimR_1],[mcpH_2]
* * ÷ ACB143 1117514 1117659 146 23 [18] [19] 22 gcvT_1 Aminomethyltransferase
* * ÷ ACB143 1923385 1923542 158 23 [20] [18] 22 [apeB] [apeB]
* * ÷ ACB143 2190995 2191045 51 22 [19] [0] 78 PP_RS10045 LysR family transcriptional regulator
* * ÷ ACB143 2288807 2288917 111 22 [20] [20] 23 CJ019_02171/CJ019_02172 hypothetical protein/hypothetical protein
* * ÷ ACB143 2467190 2467208 19 44 [1] [9] 33 CJ019_02325/tal hypothetical protein/Transaldolase
* * ÷ ACB143 2830096 2830277 182 23 [21] [21] 22 [namA_3] [namA_3]
* * ÷ ACB143 3046179 3046343 165 23 [20] [21] 24 [rcsC_5]–[degU_2] [rcsC_5],[degU_2]
* * ÷ ACB143 3769361 3769465 105 22 [18] [21] 22 CJ019_03581/CJ019_03582 hypothetical protein/hypothetical protein
* * ÷ ACB143 4344757 4344831 75 24 [19] [21] 22 nmoA Nitronate monooxygenase
* * ÷ ACB143 4521558 4521686 129 27 [21] [16] 22 [CJ019_04289] [CJ019_04289]
* * ÷ ACB143 4732374 4732502 129 23 [21] [21] 24 [CJ019_04468] [CJ019_04468]
* * ÷ ACB143 4845684 4845852 169 22 [21] [18] 22 recR/ybaB Recombination protein RecR/Nucleoid‑associated protein YbaB
* * ÷ ACB143 5192928 5193044 117 22 [18] [18] 22 [gltR_4]–[CJ019_04888] [gltR_4],[CJ019_04888]
* * ÷ ACB143 5250092 5250228 137 34 [19] [20] 30 [CJ019_04947]–[CJ019_04948] [CJ019_04947],[CJ019_04948]
* * ÷ ACB143 5503621 5503836 216 22 [20] [21] 22 [CJ019_05176] [CJ019_05176]
* * ÷ ACB143 5534171 5534335 165 22 [21] [20] 24 [nadE]–[CJ019_05208] [nadE],[CJ019_05208]
* * ÷ ACB143 5678589 5678678 90 23 [20] [21] 22 CJ019_05328/CJ019_05329 hypothetical protein/hypothetical protein
* * ÷ ACB143 5900268 5900399 132 24 [21] [19] 27 [CJ019_05521] [CJ019_05521]

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? ACB143 2191046 =0 (0.000)71 (1.360)
+TAAGAGATATTTTCAG		 43/228 0.0 100% intergenic (‑1/‑313) PP_RS10045/purU_3 LysR family transcriptional regulator/Formyltetrahydrofolate deformylase
?ACB143 = 2191046 NA (NA)intergenic (‑1/‑313) PP_RS10045/purU_3 LysR family transcriptional regulator/Formyltetrahydrofolate deformylase