Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,562,839	G→T	A106S (GCC→TCC)	yffP →	CPZ‑55 prophage; uncharacterized protein YffP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,562,839	0	G	T	100.0%	99.9 / NA	29	A106S (GCC→TCC)	yffP	CPZ‑55 prophage; uncharacterized protein YffP
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (17/12);  total (17/12)

CCTTCGATTACACGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACGCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGACATGGAACGGCAAATCAACGCAAACCT  >  NC_000913/2562702‑2562972                                                                                                                                          |                                                                                                                                      ccTTCGATTACACGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTcc                                                                                                                                     <  2:370146/140‑1 (MQ=255)      gATTACACGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACaa                                                                                                                                <  2:400847/140‑1 (MQ=255)           cacGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGt                                                                                                                              <  1:499097/137‑1 (MQ=255)           cacGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGt                                                                                                                              >  2:499097/1‑137 (MQ=255)           cacGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTggg                                                                                                                           >  2:344572/1‑140 (MQ=255)           cacGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTggg                                                                                                                           >  2:696929/1‑140 (MQ=255)            ccGGAGTGCTGGGAAATTGGTGTCCGTGACGACTGCCTGGAAATGACACCCG‑TAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTgggta                                                                                                                         <  1:108329/139‑1 (MQ=255)                     tGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAg                                                                                                                 <  1:344572/140‑1 (MQ=255)                     tGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAg                                                                                                                 >  2:423001/1‑140 (MQ=255)                            ttGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTg                                                                                                          >  1:564170/1‑140 (MQ=255)                             tGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGc                                                                                                         >  2:628869/1‑140 (MQ=255)                             tGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGc                                                                                                         <  1:565961/140‑1 (MQ=255)                                 gtTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGc                                                                                                     <  1:423001/140‑1 (MQ=255)                                               ccTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTAt                                                                                       <  1:77338/140‑1 (MQ=255)                                                 tGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATACGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGCACAGCAATGTGCTTGCCTGGGTGAGCTTATCg                                                                                     >  2:215865/1‑140 (MQ=255)                                                              cgTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCt                                                                        >  2:221327/1‑140 (MQ=255)                                                                  aaGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCAc                                                                    >  1:135900/1‑140 (MQ=255)                                                                             tCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCCCGGGTGCGAAAc                                                         <  2:135900/140‑1 (MQ=255)                                                                             tCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAAc                                                         <  2:547306/140‑1 (MQ=255)                                                                                  aaTATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGttt                                                    >  2:599329/1‑140 (MQ=255)                                                                                  aaTATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGttt                                                    <  1:547502/140‑1 (MQ=255)                                                                                               cTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCaaa                                       >  2:435000/1‑140 (MQ=255)                                                                                               cTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCaaa                                       <  1:696929/140‑1 (MQ=255)                                                                                               cTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCaaa                                       <  1:628869/140‑1 (MQ=255)                                                                                                tGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAAc                                      >  2:376074/1‑140 (MQ=255)                                                                                                  gAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGa                                    >  2:254809/1‑140 (MQ=255)                                                                                                          aaGGCGTCATGAATGACAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGAc                            >  1:82136/1‑140 (MQ=255)                                                                                                                       tgaCAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGACATGGAACGGCaaa               >  1:724272/1‑140 (MQ=255)                                                                                                                         aCAAAACCCGCTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGACATGGAACGGCAAATc             >  2:363717/1‑140 (MQ=255)                                                                                                                                   cTTCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGACATGGAACGGCAAATCAACGCAAAcc   >  2:216718/1‑140 (MQ=255)                                                                                                                                    ttCCACTCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGCCATGGAACGGCAAATCAACGCAAACCt  >  2:607653/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                      CCTTCGATTACACGGAGTGCTGGGAAATTGGTGTTCGTGACGACTGCCTGGTAATGACACGCGTTAAGCCGGTGCATCCAGAATATGCGAAGCACTGGAACATGAAAGGCGTCATGAATGACAAAACCCGCTTCCACGCCGACAAGTGGGTAGGGTACAGCAAGGTGCTTGCCTGGGTGAGCTTATCGCACAAAGACACCTTCACGGGTGCGAAACGGTTTCAATACTTCCAAACGATGTACGACATGGAACGGCAAATCAACGCAAACCT  >  NC_000913/2562702‑2562972

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑