Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	281,623	C→T	G121S (GGC→AGC)	yagA ←	CP4‑6 prophage; integrase core domain‑containing protein YagA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	281,623	0	C	T	100.0%	58.0 / NA	18	G121S (GGC→AGC)	yagA	CP4‑6 prophage; integrase core domain‑containing protein YagA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (1/17);  total (1/17)

CCAGCAGGGTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCA  >  NC_000913/281485‑281736                                                                                                                                           |                                                                                                                  ccAGCAGGGTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTGCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGGAAGCCCGGGGGAGCGCCCCGCCGCCGGCCa                                                                                                                  >  2:902173/1‑140 (MQ=255)     cagGGTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGc                                                                                                              <  1:582167/140‑1 (MQ=255)      agGGTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCg                                                                                                             <  1:875204/140‑1 (MQ=255)        ggTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCggg                                                                                                           <  1:581758/140‑1 (MQ=255)             gCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATc                                                                                                      <  2:153344/140‑1 (MQ=255)                        cGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGAc                                                                                           <  2:848000/140‑1 (MQ=255)                                   gaaaGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAgg                                                                                <  1:941857/139‑1 (MQ=255)                                   aaaaGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTTGCGAGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGCGCCATCAGGTTATGGACGGTGCTGAAgg                                                                                <  2:1100565/140‑1 (MQ=255)                                   aaaaGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAgg                                                                                <  2:435923/140‑1 (MQ=255)                                              ggCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGgtg                                                                     <  2:1046343/140‑1 (MQ=255)                                              ggCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGgtg                                                                     <  2:34890/140‑1 (MQ=255)                                               gCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGgtgt                                                                    <  1:902173/140‑1 (MQ=255)                                                    tAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGcccc                                                               <  1:660291/140‑1 (MQ=255)                                                                gCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGc                                                   <  2:1040852/140‑1 (MQ=255)                                                                                    tcgtGTTCGAACCGGCCCGTGGCGGGAATGCCCGGGGAAGCGCCCGGCAGCAGGCTATGGCGGGCCCTCAGGTTATGGGCGGGGCTGAAGGCGGGCATGGTGGGCCCCCGGTCCTCGAGCCCGCGCTTTATCTTGCgggg                               >  2:217335/1‑139 (MQ=255)                                                                                             aaCCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGGGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCg                      >  1:82933/1‑140 (MQ=255)                                                                                                         gCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTc          <  2:1033694/140‑1 (MQ=255)                                                                                                         gCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTc          <  2:607460/140‑1 (MQ=255)                                                                                                           gggAATGCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCAt        <  1:607893/140‑1 (MQ=255)                                                                                                                 gCCCGGTGAAGCGCCCGGCAGCAGGCTATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCa  <  1:178837/140‑1 (MQ=255)                                                                                                                                           |                                                                                                                  CCAGCAGGGTGAGCGGATGGCAGCGTCCACCGCCAAAAGGAAAGTGGCCCTTAAAATCCATCTGCCAGAGGCGGTTCGGCGCGTCGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCA  >  NC_000913/281485‑281736

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑