Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	852,869	C→T	*43* (TAG→TAA)	mntS ←	Mn(2)‑response protein, MntR‑repressed

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	852,869	0	C	T	100.0%	115.4 / NA	37	*43* (TAG→TAA)	mntS	Mn(2)‑response protein, MntR‑repressed
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (18/19);  total (18/19)

CAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGCTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATAA  >  NC_000913/852741‑852999                                                                                                                                 |                                                                                                                                   cAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCgg                                                                                                                          <  2:199503/139‑1 (MQ=255)                       aTCTTTTGCGAAGGGGATTGCAAATCCAACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGttt                                                                                                    >  2:711003/1‑139 (MQ=255)                                  aGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCa                                                                                         <  2:81663/139‑1 (MQ=255)                                      gATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATc                                                                                     <  2:36143/139‑1 (MQ=255)                                         tGCAAATCCAACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                  <  1:711003/139‑1 (MQ=255)                                                ccGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATa                                                                           >  1:177781/1‑139 (MQ=255)                                                ccGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATa                                                                           >  2:22602/1‑139 (MQ=255)                                                    cAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagaga                                                                       <  1:453107/139‑1 (MQ=255)                                                                                gcgTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGgaga                                           <  1:784231/139‑1 (MQ=255)                                                                                    tATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAAt                                         <  1:338793/137‑1 (MQ=255)                                                                                    tATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAAt                                         >  2:338793/1‑137 (MQ=255)                                                                                          tGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCg                                                                                                                           >  2:271635/1‑49 (MQ=255)                                                                                          tGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCg                                                                                                                           <  1:271635/49‑1 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGt                                                                                                      <  1:337874/68‑1 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGt                                                                                                      >  2:337874/1‑68 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGcaca                                                                                >  2:774529/1‑90 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGcaca                                                                                <  1:774529/90‑1 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGc                                                                                   <  1:196082/87‑1 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGc                                                                                   >  2:196082/1‑87 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagagag                                                                      <  1:24872/100‑1 (MQ=255)                                                                                            cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagagag                                                                      >  2:24872/1‑100 (MQ=255)                                                                                                aaaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACgcgc                           >  2:639468/1‑139 (MQ=255)                                                                                                 aaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                  <  1:459234/83‑1 (MQ=255)                                                                                                 aaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                  >  2:459234/1‑83 (MQ=255)                                                                                                        aGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTCGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACct                   >  1:359455/1‑139 (MQ=255)                                                                                                             aGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                  <  1:716986/71‑1 (MQ=255)                                                                                                             aGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                  >  2:716986/1‑71 (MQ=255)                                                                                                              gcggcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCg                                                                                                        >  1:278145/1‑48 (MQ=255)                                                                                                              gcggcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCg                                                                                                        <  2:278145/48‑1 (MQ=255)                                                                                                               cggcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAAc            >  1:777536/1‑139 (MQ=255)                                                                                                                 gcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGcaca                                                                                <  2:353880/69‑1 (MQ=255)                                                                                                                 gcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGcaca                                                                                >  1:353880/1‑69 (MQ=255)                                                                                                                        gcgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAAcc                                                           >  1:703812/1‑83 (MQ=255)                                                                                                                        gcgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAAcc                                                           <  2:703812/83‑1 (MQ=255)                                                                                                                         cgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGa                                       <  2:174297/102‑1 (MQ=255)                                                                                                                         cgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGa                                       >  1:174297/1‑102 (MQ=255)                                                                                                                         cgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATaa  <  1:186787/139‑1 (MQ=255)                                                                                                                            cgccgtTATTTATCGGAAGGTTTATCTTGCTGCGGt                                                                                                      <  2:330585/36‑1 (MQ=255)                                                                                                                            cgccgtTATTTATCGGAAGGTTTATCTTGCTGCGGt                                                                                                      >  1:330585/1‑36 (MQ=255)                                                                                                                                 |                                                                                                                                   CAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGCTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATAA  >  NC_000913/852741‑852999

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑