Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	721,768	T→C	T883A (ACT→GCT)	kdpD ←	sensory histidine kinase KdpD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	721,768	0	T	C	100.0%	147.7 / NA	40	T883A (ACT→GCT)	kdpD	sensory histidine kinase KdpD
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/23);  total (17/23)

AGCGTTTCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGTTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTCCAAGCCCTACCCCCGGTACTGCCGACT  >  NC_000913/721633‑721899                                                                                                                                        |                                                                                                                                    aGCGTTTCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGc                                                                                                                                 <  2:839690/140‑1 (MQ=255)     tttCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTggg                                                                                                                             <  2:665158/140‑1 (MQ=255)     tttCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTggg                                                                                                                             >  1:516423/1‑140 (MQ=255)      ttCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTgggg                                                                                                                            <  2:15445/140‑1 (MQ=255)      ttCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTgggg                                                                                                                            >  1:719085/1‑140 (MQ=255)       tCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGa                                                                                                                           <  1:779723/140‑1 (MQ=255)           ccTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAgtg                                                                                                                       <  1:729106/140‑1 (MQ=255)                  gACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACg                                                                                                                <  1:262506/140‑1 (MQ=255)                     gcgcATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGaaa                                                                                                             >  2:374890/1‑140 (MQ=255)                      cgcATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGaaaa                                                                                                            <  2:646792/140‑1 (MQ=255)                      cgcATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGaaaa                                                                                                            >  2:476585/1‑140 (MQ=255)                         aTCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAg                                                                                                         >  2:472927/1‑140 (MQ=255)                           cccGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGc                                                                                                       >  2:330953/1‑140 (MQ=255)                                 gCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCaccacc                                                                                                 <  1:428578/140‑1 (MQ=255)                                             cGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGtt                                                                                     >  2:57481/1‑140 (MQ=255)                                               tGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGa                                                                                   >  2:690519/1‑140 (MQ=255)                                               tGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGa                                                                                   >  1:669257/1‑140 (MQ=255)                                                gcgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGaa                                                                                  <  1:460076/140‑1 (MQ=255)                                                gcgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGaa                                                                                  <  1:72429/140‑1 (MQ=255)                                                gcgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGaa                                                                                  <  2:644541/140‑1 (MQ=255)                                                gcgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGaa                                                                                  <  2:561562/140‑1 (MQ=255)                                                 cgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCcggt                                                                                          <  2:803320/131‑1 (MQ=255)                                                 cgcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCcggt                                                                                          >  1:803320/1‑131 (MQ=255)                                                  gcAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAAcg                                                                                <  1:751318/140‑1 (MQ=255)                                                      aaaGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGt                                                                            <  2:719085/140‑1 (MQ=255)                                                             cgaATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTg                                                                     <  1:374890/140‑1 (MQ=255)                                                                 tAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGcccc                                                                 <  2:669257/140‑1 (MQ=255)                                                                    ccTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCgt                                                              >  1:400996/1‑140 (MQ=255)                                                                         tCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACa                                                         <  1:472927/140‑1 (MQ=255)                                                                         tCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGG‑CGGGTGGACCCGGGAATAAGGGCCCCGGGGACaa                                                        >  1:833041/1‑139 (MQ=255)                                                                             cTTCAACAATCAGAACGTTGGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCa                                                     >  1:868566/1‑140 (MQ=255)                                                                              ttCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCAc                                                    <  1:330953/140‑1 (MQ=255)                                                                                     aTCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCGCTATCGcc                                             <  1:74694/140‑1 (MQ=255)                                                                                      tCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGccc                                            >  2:592581/1‑140 (MQ=255)                                                                                      tCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGccc                                            <  1:258206/140‑1 (MQ=255)                                                                                                      atatCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTcc                            <  1:57481/140‑1 (MQ=255)                                                                                                        atCCTCATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATGCACTATCGCCCGACAAATTGCCAGTCCaa                          >  2:677295/1‑140 (MQ=255)                                                                                                             cATGAAATTCTTCAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTCCAAGCCCt                     <  2:516423/140‑1 (MQ=255)                                                                                                                       ttcAAGTTCAGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTCCAAGCCCTACCCCCGGTa           >  1:518607/1‑140 (MQ=255)                                                                                                                                aGGGGCAGCTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTCCAAGCCCTACCCCCGGTACTGCCGAct  >  2:442247/1‑140 (MQ=255)                                                                                                                                        |                                                                                                                                    AGCGTTTCGGCCTCAAAGACGCGCATCCCGTCGCCCTCCAGCGCCGTGCGCAGAAAGCGACGAATAGCCTGTTCATCTTCAACAATCAGAACGTTTGTCACATATCCTCATGAAATTCTTCAAGTTCAGGGGCAGTTTGCTGGGGAAGTGTAACACGAAAACAGGCACCACCTTCCGGTCGGTTGAACGCGGTAATAGTGCCCCCGTGTACATCCACTATCGCCCGACAAATTGCCAGTCCAAGCCCTACCCCCGGTACTGCCGACT  >  NC_000913/721633‑721899

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑