Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	281,662	Δ1 bp	coding (322/1155 nt)	yagA ←	CP4‑6 prophage, putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	281,660	0	G	.	100.0%	94.1 / NA	24	coding (324/1155 nt)	yagA	CP4‑6 prophage, putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (10/14);  total (10/14)

GAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAA  >  NC_000913/281524‑281780                                                                                                                                         |                                                                                                                         gAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCggc                                                                                                                        <  1:298806/139‑2 (MQ=255)         cccTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATTCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCggca                                                                                                                       >  1:1098734/1‑130 (MQ=255)         cccTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCggca                                                                                                                       <  2:1098734/132‑3 (MQ=255)         cccTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGtgtg                                                                                                               >  2:446266/1‑139 (MQ=255)                         gCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGc                                                                                               <  1:1239627/139‑1 (MQ=255)                         gCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGc                                                                                               <  2:133458/139‑1 (MQ=255)                          ccAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGcc                                                                                              <  1:446266/139‑1 (MQ=255)                           cAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCGATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCa                                                                                             <  1:681664/139‑1 (MQ=255)                           cAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCa                                                                                             <  1:1581382/139‑1 (MQ=255)                                                           gCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTg                                                                                                         <  2:668689/95‑1 (MQ=255)                                                           gCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTg                                                                                                         >  1:668689/1‑95 (MQ=255)                                                           gCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGc                                                                                               <  1:1255688/105‑1 (MQ=255)                                                           gCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGc                                                                                               >  2:1255688/1‑105 (MQ=255)                                                                         tGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGcc                                               <  2:654435/139‑1 (MQ=255)                                                                                   aGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACgcagca                                     <  1:58791/139‑1 (MQ=255)                                                                                   aGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACgcagca                                     >  2:1255391/1‑139 (MQ=255)                                                                                       cccGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGa                                                           >  1:266290/1‑113 (MQ=255)                                                                                       cccGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGa                                                           <  2:266290/113‑1 (MQ=255)                                                                                                    cATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCa                    >  1:1604187/1‑139 (MQ=255)                                                                                                    cATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCa                    >  2:255755/1‑139 (MQ=255)                                                                                                      tGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGa                  >  1:1479634/1‑139 (MQ=255)                                                                                                       ggCGGGCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGAt                 >  2:949450/1‑139 (MQ=255)                                                                                                          gggCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg              <  2:1583554/139‑1 (MQ=255)                                                                                                          gggCCATCAGGTTATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg              <  1:255755/139‑1 (MQ=255)                                                                                                                      tATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGaa  <  2:1479634/139‑1 (MQ=255)                                                                                                                      tATGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTAGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGaa  <  1:974647/139‑1 (MQ=255)                                                                                                                        tGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg              >  2:203723/1‑125 (MQ=255)                                                                                                                        tGGACGGTGCTGAAGGC‑GGCATGGTGTGCCCCCGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCACCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg              <  1:203723/125‑1 (MQ=255)                                                                                                                                         |                                                                                                                         GAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAA  >  NC_000913/281524‑281780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑