Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AM260479	3,529,607	+C	intergenic (‑121/‑183)	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	3,529,606	1	.	C	100.0%	148.0 / NA	38	intergenic (‑120/‑184)	secA/h16_A3265	preprotein translocase subunit SecA/Hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (20/18);  total (20/18)

GTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC  >  AM260479/3529479‑3529730                                                                                                                                  |                                                                                                                             gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccgg                                                                                                                          >  1:394623/1‑130 (MQ=255)    atcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGTGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       <  1:88814/134‑1 (MQ=255)        tcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGcc                                                                                                                   <  2:394623/134‑1 (MQ=255)          gATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCt                                                                                                                  <  2:115513/133‑1 (MQ=255)           aTTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       >  1:1182441/1‑127 (MQ=255)           aTTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       <  2:1182441/127‑1 (MQ=255)            ttGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGc                                                                                                               <  2:1175909/134‑1 (MQ=255)            ttGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGc                                                                                                               >  2:291171/1‑134 (MQ=255)                tttCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCg                                                                                                           >  2:162226/1‑134 (MQ=255)                        gcgcGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGc                                                                                                     >  2:239857/1‑132 (MQ=255)                             gAACCGGGCGGCATCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAggg                                                                                                >  2:198662/1‑132 (MQ=255)                             gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       >  1:84854/1‑109 (MQ=255)                             gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       <  2:84854/109‑1 (MQ=255)                                       gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTg                                                                                    >  2:1122316/1‑134 (MQ=255)                                                      gggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       >  2:378057/1‑84 (MQ=255)                                                      gggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       <  1:378057/84‑1 (MQ=255)                                                       ggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcg                                                                    <  1:239857/134‑1 (MQ=255)                                                        gctgctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcgc                                                                   <  2:762962/134‑1 (MQ=255)                                                           gctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       <  2:186679/79‑1 (MQ=255)                                                           gctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg                                                                                                                       >  1:186679/1‑79 (MQ=255)                                                                ggcggcCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTc                                                           >  1:1135229/1‑134 (MQ=255)                                                                        ggCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt                                                   <  2:1135229/134‑1 (MQ=255)                                                                                  ggATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCcgcg                                            >  2:851005/1‑131 (MQ=255)                                                                                  ggATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCcgcg                                            <  1:851005/131‑1 (MQ=255)                                                                                       gATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGcc                                    >  1:288592/1‑134 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGt                                                                            >  1:110615/1‑84 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGt                                                                            <  2:110615/84‑1 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcgc                                                                   <  1:316195/93‑1 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcgc                                                                   >  2:316195/1‑93 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCgtgt                                                               >  1:406138/1‑97 (MQ=255)                                                                                                 aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCgtgt                                                               <  2:406138/97‑1 (MQ=255)                                                                                                                        ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGc                                                                                       >  1:124547/1‑50 (MQ=255)                                                                                                                        ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGc                                                                                       <  2:124547/50‑1 (MQ=255)                                                                                                                        ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAtt                        >  2:220575/1‑113 (MQ=255)                                                                                                                        ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAtt                        <  1:220575/113‑1 (MQ=255)                                                                                                                        ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccg   <  1:733549/134‑1 (MQ=255)                                                                                                                         gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccgc  >  2:158792/1‑134 (MQ=255)                                                                                                                         gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccgc  >  2:868472/1‑134 (MQ=255)                                                                                                                         gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgcccc  >  2:1175820/1‑132 (MQ=255)                                                                                                                                  |                                                                                                                             GTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGC  >  AM260479/3529479‑3529730

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑