Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	267,888	A→G	S40P (TCC→CCC)	yafZ ←	CP4‑6 prophage; conserved protein YafZ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	267,888	0	A	G	100.0%	180.9 / NA	52	S40P (TCC→CCC)	yafZ	CP4‑6 prophage; conserved protein YafZ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (28/24);  total (28/24)

TTGTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGACTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGACTCCTCAT  >  NC_000913/267762‑268020                                                                                                                               |                                                                                                                                     ttGTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTcc                                                                                                                         <  2:101556/140‑1 (MQ=255) ttGTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTcc                                                                                                                         <  2:118158/140‑1 (MQ=255)   gTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTc                                                                                                                       >  2:57054/1‑140 (MQ=255)   gTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTc                                                                                                                       <  2:588892/140‑1 (MQ=255)         tCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGaa                                                                                                                 >  2:12757/1‑140 (MQ=255)         tCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGaa                                                                                                                 >  2:884645/1‑140 (MQ=255)          cACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAAt                                                                                                                >  1:102670/1‑140 (MQ=255)                   ccGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGc                                                                                                       >  1:137786/1‑140 (MQ=255)                    cGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCa                                                                                                      <  1:732284/140‑1 (MQ=255)                          acgcacgcGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTAcgc                                                                                                >  2:806697/1‑140 (MQ=255)                              acgcGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGaaa                                                                                            <  1:191300/140‑1 (MQ=255)                              acgcGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGaaa                                                                                            <  2:137786/140‑1 (MQ=255)                              acgcGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGaaa                                                                                            <  1:543812/140‑1 (MQ=255)                                 cgGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAg                                                                                         <  1:161829/140‑1 (MQ=255)                                        gACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCa                                                                                  <  1:884645/140‑1 (MQ=255)                                              cAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGtt                                                                            >  1:753240/1‑140 (MQ=255)                                                                cTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACgg                                                          <  2:753240/140‑1 (MQ=255)                                                                 ttCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGa                                                         <  1:12757/140‑1 (MQ=255)                                                                 ttCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGa                                                         >  1:251909/1‑140 (MQ=255)                                                                          tAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTtg                                                >  2:197944/1‑140 (MQ=255)                                                                                gTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTgcgc                                          >  1:975059/1‑140 (MQ=255)                                                                                 tCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGcc                                         >  2:68781/1‑140 (MQ=255)                                                                                  cGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCAGTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCa                                        >  1:325644/1‑140 (MQ=255)                                                                                  cGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCa                                        >  2:809555/1‑140 (MQ=255)                                                                                  cGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCa                                        <  1:508874/140‑1 (MQ=255)                                                                                           agaTGGTGGGTGTATAGGTATAACGCTCACTACGGGGCTTGTGTTTGTCCTCACTGATTACACTGGGCACTACGCGAAACAGGTCTTCACGCGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGaa                               >  2:430088/1‑140 (MQ=255)                                                                                           agaTGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACGCTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGaa                               >  1:306251/1‑140 (MQ=255)                                                                                           agaTGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGaa                               >  1:809863/1‑140 (MQ=255)                                                                                             aTGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGc                             >  2:826952/1‑140 (MQ=255)                                                                                             aTGGTGGGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGc                             >  2:202406/1‑140 (MQ=255)                                                                                              tggtggGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGcc                            >  2:559224/1‑140 (MQ=255)                                                                                                 tggGTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGa                         <  2:214301/140‑1 (MQ=255)                                                                                                  gggTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGAc                        <  1:454405/140‑1 (MQ=255)                                                                                                  gggTATATAGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGAc                        <  1:50416/140‑1 (MQ=255)                                                                                                     tatataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACggg                     >  2:238524/1‑140 (MQ=255)                                                                                                      atataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCAGTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGt                    <  2:325644/140‑1 (MQ=255)                                                                                                      atataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGt                    <  2:251909/140‑1 (MQ=255)                                                                                                      atataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGt                    <  2:29054/140‑1 (MQ=255)                                                                                                       tataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTc                   >  1:766623/1‑140 (MQ=255)                                                                                                       tataGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTc                   >  1:719775/1‑140 (MQ=255)                                                                                                         taGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCAt                 >  1:82595/1‑140 (MQ=255)                                                                                                          aGGTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATa                >  2:174520/1‑140 (MQ=255)                                                                                                            gTATAACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAg              <  1:174520/140‑1 (MQ=255)                                                                                                             tataACGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGc             <  2:102670/140‑1 (MQ=255)                                                                                                                aaCGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGa          <  2:719775/140‑1 (MQ=255)                                                                                                                aaCGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGa          <  1:559224/140‑1 (MQ=255)                                                                                                                 aCGCTCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGAc         <  1:197944/140‑1 (MQ=255)                                                                                                                     tCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGActcct     >  1:391765/1‑140 (MQ=255)                                                                                                                     tCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGActcct     >  1:943356/1‑140 (MQ=255)                                                                                                                     tCACTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGActcct     >  1:60999/1‑140 (MQ=255)                                                                                                                       aCTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCa            <  2:805472/131‑1 (MQ=255)                                                                                                                       aCTACGGGGCTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCa            >  1:805472/1‑131 (MQ=255)                                                                                                                       aCTACGGGGCTCGTG‑TTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGACTCCTCAt  >  2:609428/1‑140 (MQ=255)                                                                                                                               |                                                                                                                                     TTGTATGTTCACGACGACCCGGGTCACGCACGCGGGTCTGACAGGCAAAGAATGGCTGGAAGCCTTCTCGCTGTAGGCTGTCGAGCAGGGAGATGGTGGGTATATAGGTATAACGCTCACTACGGGACTCGTGTTTGTCCTCACTGAATACACTGGGCACTACGCGAAACAGCTCTTCACGGGTTAACGGACGGTCGCGACGGATAAGGTTTGCTGCGCCAAAGCGCGAAGCCAGACGGGTCATAAGCAGACTCCTCAT  >  NC_000913/267762‑268020

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑