Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,606,026	A→G	pseudogene (125/987 nt)	dgcF ←	GGDEF domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,606,026	0	A	G	100.0%	72.6 / NA	21	pseudogene (125/987 nt)	dgcF	GGDEF domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (8/13);  total (8/13)

CTCCCCGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCAGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTGAGAATTGCTCACTGAACCAG  >  NZ_CP009273/1605939‑1606100                                                                                        |                                                                           cTCCCCGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCggcggc                                                                          <  2:247688/90‑1 (MQ=255)   ccccGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGgcagc                                                                          <  1:219676/88‑1 (MQ=255)   ccccGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGgcagc                                                                          >  2:219676/1‑88 (MQ=255)      cGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTcc                                                                     <  1:392329/90‑1 (MQ=255)           cGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGaa                                                                >  2:398844/1‑90 (MQ=255)            gCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAAt                                                               <  2:203946/90‑1 (MQ=255)                   aCTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAAc                                                        <  1:267992/90‑1 (MQ=255)                   aCTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAAc                                                        <  1:67496/90‑1 (MQ=255)                   aCTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAAc                                                        <  2:341016/90‑1 (MQ=255)                      aCCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAAt                                                               <  2:432765/80‑1 (MQ=255)                      aCCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAAt                                                               >  1:432765/1‑80 (MQ=255)                        cGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAg                                                   <  1:30051/90‑1 (MQ=255)                         gAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGc                                                  >  2:86432/1‑90 (MQ=255)                                  aCCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGc                                         <  2:503330/90‑1 (MQ=255)                                           aTAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAac                                <  2:389882/90‑1 (MQ=255)                                             aaGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAacac                              >  2:17278/1‑90 (MQ=255)                                                   gATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGt                        >  1:448186/1‑90 (MQ=255)                                                   gATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGt                        >  1:380339/1‑90 (MQ=255)                                                     tGGCGGGCATTATCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTg                      <  1:338445/90‑1 (MQ=255)                                                            catcatCTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTGAGAATTg               <  2:40029/90‑1 (MQ=255)                                                               catcTGTTCTGCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTGAGAATTGCTc            <  1:17278/90‑1 (MQ=255)                                                                         gCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAgg                                          <  2:177828/50‑1 (MQ=255)                                                                         gCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAgg                                          >  1:177828/1‑50 (MQ=255)                                                                         gCTTTAAAGCGCGGCGGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTGAGAATTGCTCACTGAACCAg  >  1:382624/1‑90 (MQ=255)                                                                                        |                                                                           CTCCCCGCTCCGCCAATGACTACCGAGGCAATAACCGACACAATAAGCGCGATGGCGGGCATCATCTGTTCTGCTTTAAAGCGCGGCAGCACTCCAGGAATAGCCAACGTCAGCATACAAGGCACGATCAACACGCCCGTTGAGAATTGCTCACTGAACCAG  >  NZ_CP009273/1605939‑1606100

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑