Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AM260479	3,529,526	+G	intergenic (‑40/‑264)	secA ← / → h16_A3265	preprotein translocase subunit SecA/Hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AM260479	3,529,524	1	.	G	100.0%	143.9 / NA	38	intergenic (‑38/‑266)	secA/h16_A3265	preprotein translocase subunit SecA/Hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (18/20);  total (18/20)

GCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTG  >  AM260479/3529398‑3529648                                                                                                                                |                                                                                                                              gcATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑gggatgc                                                                                                                        >  1:375522/1‑129 (MQ=255) gcATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑gggatgc                                                                                                                        >  1:754138/1‑129 (MQ=255)             gcCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg                                                                                                             <  1:955528/134‑1 (MQ=255)                aCCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcggcgg                                                                                                          >  1:1042245/1‑134 (MQ=255)                     gcggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGCCTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCATCCCAGGGATGCGGGCTGCTCCGGCGGCCgg                                                                                                      <  1:838094/133‑1 (MQ=255)                     gcggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCggg                                                                                                     >  2:804055/1‑134 (MQ=255)                     gcggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCgg                                                                                                      >  2:838094/1‑133 (MQ=255)                       ggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCg                                                                                                   <  1:791362/134‑1 (MQ=255)                       ggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCg                                                                                                   <  2:754138/134‑1 (MQ=255)                                  ttGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGa                                                                                          >  2:331320/1‑132 (MQ=255)                                             cTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             <  1:662531/134‑1 (MQ=255)                                             cTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             <  1:582371/134‑1 (MQ=255)                                                aTTGCGGCTTCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaa                                                                            <  2:1042245/132‑1 (MQ=255)                                                aTTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaaa                                                                           <  2:375522/133‑1 (MQ=255)                                                    cGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaaa                                                                           >  2:770276/1‑129 (MQ=255)                                                    cGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaaa                                                                           <  1:770276/129‑1 (MQ=255)                                                              aGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGcc                                                                                                        >  1:637380/1‑90 (MQ=255)                                                              aGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGcc                                                                                                        <  2:637380/90‑1 (MQ=255)                                                                        gagaAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGt                                                  >  2:211360/1‑134 (MQ=255)                                                                                  gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCgg                                                     <  2:704089/121‑1 (MQ=255)                                                                                  gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCgg                                                     >  1:704089/1‑121 (MQ=255)                                                                                      tcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg                                                                                                             <  2:379242/61‑1 (MQ=255)                                                                                      tcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg                                                                                                             >  1:379242/1‑61 (MQ=255)                                                                                           gATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCt                                <  1:331320/133‑1 (MQ=255)                                                                                                      ccTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             >  1:191192/1‑77 (MQ=255)                                                                                                      ccTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             <  2:191192/77‑1 (MQ=255)                                                                                                       cTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                     <  2:866187/116‑1 (MQ=255)                                                                                                       cTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                     >  1:866187/1‑116 (MQ=255)                                                                                                          cgcgGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAg                >  1:1097360/1‑134 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             <  2:286746/69‑1 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             <  2:549891/69‑1 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             >  1:549891/1‑69 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa                                                                             >  1:286746/1‑69 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                     <  2:293347/109‑1 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                     >  1:293347/1‑109 (MQ=255)                                                                                                              gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAggg              >  1:870022/1‑132 (MQ=255)                                                                                                                  cGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGggcaggca        <  2:1069804/134‑1 (MQ=255)                                                                                                                        gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaa                                                                            >  2:681712/1‑60 (MQ=255)                                                                                                                        gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaa                                                                            <  1:681712/60‑1 (MQ=255)                                                                                                                        gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTg  >  2:1080392/1‑134 (MQ=255)                                                                                                                                |                                                                                                                              GCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTG  >  AM260479/3529398‑3529648

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑