breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_pae_tpiA4,295,9760CT32.7% 54.4 / 28.7 52intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
*NC_000913_3_pae_tpiA4,262,1660GC22.7% 28.7 / 12.2 22G194G (GGG→GGCdusAtRNA‑dihydrouridine synthase A
*NC_000913_3_pae_tpiA4,262,1710GC21.7% 35.5 / 11.4 23S196T (AGC→ACC) dusAtRNA‑dihydrouridine synthase A

Marginal new junction evidence (lowest skew 10 of 144 shown)
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_tpiA 2729630 =NA (NA)11 (0.290) 7/274 4.0 NA noncoding (1528/1542 nt) rrsG 16S ribosomal RNA of rrnG operon
?NC_000913_3_pae_tpiA 2729652 = NA (NA)noncoding (1506/1542 nt) rrsG 16S ribosomal RNA of rrnG operon
* ? NC_000913_3_pae_tpiA 225154 =NA (NA)7 (0.190) 7/274 4.0 NA noncoding (1384/1542 nt) rrsH 16S ribosomal RNA of rrnH operon
?NC_000913_3_pae_tpiA 225176 = NA (NA)noncoding (1406/1542 nt) rrsH 16S ribosomal RNA of rrnH operon
* ? NC_000913_3_pae_tpiA = 2430968NA (NA)6 (0.170)
+GTTCACTGTAG
6/262 4.2 NA noncoding (40/84 nt) REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913_3_pae_tpiA = 2662574 NA (NA)noncoding (266/266 nt) REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences
* ? NC_000913_3_pae_tpiA = 2430968NA (NA)6 (0.170)
+GTTCACTGTAG
6/262 4.2 15.3% noncoding (40/84 nt) REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913_3_pae_tpiA = 2662483 36 (0.920)noncoding (175/266 nt) REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences
* ? NC_000913_3_pae_tpiA = 2430968NA (NA)6 (0.170)
+GTTCACTGTAG
6/262 4.2 10.4% noncoding (40/84 nt) REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences REP169 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913_3_pae_tpiA = 2662392 56 (1.430)noncoding (84/266 nt) REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences
* ? NC_000913_3_pae_tpiA 274620 =NA (NA)6 (0.160) 6/266 4.2 NA coding (498/1017 nt) insH1 IS5 transposase and trans‑activator
?NC_000913_3_pae_tpiA 274663 = NA (NA)coding (455/1017 nt) insH1 IS5 transposase and trans‑activator
* ? NC_000913_3_pae_tpiA = 39460533 (0.080)7 (0.180) 6/276 4.4 70.6% noncoding (2350/2904 nt) rrlC 23S ribosomal RNA of rrnC operon
?NC_000913_3_pae_tpiA = 3946069 NA (NA)noncoding (2366/2904 nt) rrlC 23S ribosomal RNA of rrnC operon
* ? NC_000913_3_pae_tpiA = 228108NA (NA)7 (0.180) 6/276 4.4 NA noncoding (2350/2904 nt) rrlH 23S ribosomal RNA of rrnH operon
?NC_000913_3_pae_tpiA = 228124 NA (NA)noncoding (2366/2904 nt) rrlH 23S ribosomal RNA of rrnH operon
* ? NC_000913_3_pae_tpiA 3123452 =37 (0.940)5 (0.130) 5/270 4.7 11.9% coding (354/2172 nt) glcB malate synthase G
?NC_000913_3_pae_tpiA 3123480 = 39 (1.050)coding (326/2172 nt) glcB malate synthase G
* ? NC_000913_3_pae_tpiA = 305697144 (1.120)5 (0.140) 5/268 4.7 10.8% noncoding (123/140 nt) sibC sRNA antisense regulator of toxic IbsC protein
?NC_000913_3_pae_tpiA = 3056979 41 (1.110)noncoding (131/140 nt) sibC sRNA antisense regulator of toxic IbsC protein