Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	281,679	T→C	D102G (GAC→GGC)	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	281,679	0	T	C	100.0%	165.5 / NA	47	D102G (GAC→GGC)	yagA	CP4‑6 prophage; integrase core domain‑containing protein YagA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (19/28);  total (19/28)

CGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACC  >  NC_000913/281569‑281812                                                                                                               |                                                                                                                                      cgtGTTCGTACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCCGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCt                                                                                                          >  2:419967/1‑140 (MQ=255) cgtGTTCGAACCGGCCCGTGGCGNNAATGCCCGGTGGAGCGCCCGGCAGGAGGCCATGGCGGGCCATCAGGGTATGGACGGGGTTGGAGGCGGGCCTGGTGTGCCCCTGGGCCCTGAGGCCACGCTTTATTTTTTGGGCt                                                                                                          >  2:1152941/1‑140 (MQ=255)               cccGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATg                                                                                            >  1:273481/1‑140 (MQ=255)                ccGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGa                                                                                           <  2:87841/140‑1 (MQ=255)                   tGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGGGCTGGAGGCGGGGATGGGGTGCCCCCGGCCCCCGAGCCCGCGCTTTATCTTGCGGGCTCCCCAGCGGTCCTGACgg                                                                                        >  2:442646/1‑140 (MQ=255)                    ggCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCCTCAGGTTATGGAAGGTGCTGAAGGCGGGCATGGGGTGCCCCCGGCCCCCGAGCCAGCGCCTAATCTTGCGGGCTCCCCAGCGTTCATGACggg                                                                                       >  2:260686/1‑139 (MQ=255)                       gggAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCAt                                                                                    <  1:681136/140‑1 (MQ=255)                               ccGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGcc                                                                               <  2:372616/137‑1 (MQ=255)                               ccGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGcc                                                                               >  1:372616/1‑137 (MQ=255)                                   tGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACgca                                                                        >  1:328928/1‑140 (MQ=255)                                    gAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACgcag                                                                       >  1:147607/1‑140 (MQ=255)                                         gcCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAggg                                                                  <  1:377017/140‑1 (MQ=255)                                             ggCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGt                                                              >  1:179396/1‑140 (MQ=255)                                              gcagcaGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTg                                                             <  1:154604/140‑1 (MQ=255)                                              gcagcaGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTg                                                             <  1:911869/140‑1 (MQ=255)                                              gcagcaGGCCATGGCGGGCCATCAGGTTATGGAAGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTg                                                             <  1:260686/140‑1 (MQ=255)                                                agcagGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGAt                                                           <  1:890525/140‑1 (MQ=255)                                                         tGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGAt                                                           <  1:624457/131‑1 (MQ=255)                                                         tGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGAt                                                           >  2:624457/1‑131 (MQ=255)                                                         tGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGa                                                  >  2:60322/1‑140 (MQ=255)                                                         tGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGa                                                  >  2:138202/1‑140 (MQ=255)                                                             gggCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg                                              <  2:328928/140‑1 (MQ=255)                                                               gCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg                                              >  1:1160875/1‑138 (MQ=255)                                                               gCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAg                                              <  2:1160875/138‑1 (MQ=255)                                                               gCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGc                                             >  2:74526/1‑139 (MQ=255)                                                               gCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGc                                             <  1:74526/139‑1 (MQ=255)                                                                ccATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCgg                                           >  1:79667/1‑140 (MQ=255)                                                                 cATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGt                                          <  2:179396/140‑1 (MQ=255)                                                                 cATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGt                                          <  2:988799/140‑1 (MQ=255)                                                                    cAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCg                                       <  1:88172/140‑1 (MQ=255)                                                                      ggTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCggg                                     <  1:208336/140‑1 (MQ=255)                                                                        ttATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGa                                   <  1:175948/140‑1 (MQ=255)                                                                        ttATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGa                                   <  1:419967/140‑1 (MQ=255)                                                                        ttATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGa                                   <  1:60322/140‑1 (MQ=255)                                                                         tATGGACGGTGCTGAAGGCGGGCATGGTGTACCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGaa                                  <  1:969187/140‑1 (MQ=255)                                                                          aTGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAAt                                 <  1:1152941/140‑1 (MQ=255)                                                                                 gTGCTGAAGGCGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCGGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCgg                          >  2:803429/1‑140 (MQ=255)                                                                                           cGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:389443/140‑1 (MQ=255)                                                                                           cGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:273481/140‑1 (MQ=255)                                                                                           cGGGCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:147607/140‑1 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                >  1:607287/1‑139 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                >  1:8535/1‑139 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:607287/139‑1 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:1098988/139‑1 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  2:8535/139‑1 (MQ=255)                                                                                            gggCATGGTGTGCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                >  1:1098988/1‑139 (MQ=255)                                                                                                    tgtgCCCCTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGa       >  2:555820/1‑140 (MQ=255)                                                                                                        ccccTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                >  2:312392/1‑127 (MQ=255)                                                                                                        ccccTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCgcggg                <  1:312392/127‑1 (MQ=255)                                                                                                         cccTGGCCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGAcc  >  1:762642/1‑140 (MQ=255)                                                                                                               |                                                                                                                                      CGTGTTCGAACCGGCCCGTGGCGGGAATGCCCGGTGAAGCGCCCGGCAGCAGGCCATGGCGGGCCATCAGGTTATGGACGGTGCTGAAGGCGGGCATGGTGTGCCCCTGGTCCTCGAGCCAGCGCTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACC  >  NC_000913/281569‑281812

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑