Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,419,159	G→A	*163* (TAG→TAA)  S51S (AGC→AGT)	sieB → ydaF ←	phage superinfection exclusion protein, Rac prophage uncharacterized protein, Rac prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,419,159	0	G	A	100.0%	120.6 / NA	38	*163* (TAG→TAA)  S51S (AGC→AGT)	sieB ydaF	phage superinfection exclusion protein, Rac prophage uncharacterized protein, Rac prophage
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/21);  total (17/21)

AAAATTAGAACGGAAGGGCATCATTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAGCTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTCGTT  >  NC_000913/1419027‑1419287                                                                                                                                     |                                                                                                                                 aaaaTTAGAACGGAAGGGCATCATTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACt                                                                                                                            <  2:318432/139‑1 (MQ=255)                      catTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCgg                                                                                                       >  2:436957/1‑139 (MQ=255)                            aCATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCa                                                                                                 >  2:67996/1‑139 (MQ=255)                             cATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCAc                                                                                                >  2:632732/1‑139 (MQ=255)                                 agagTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGt                                                                                            >  2:136440/1‑139 (MQ=255)                                   agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAGCAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGttt                                                                                          >  2:334326/1‑139 (MQ=255)                                   agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTTTGCTTCTTCAACCATTGGCGCTCATCAGttt                                                                                          >  1:748376/1‑139 (MQ=255)                                       aTAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGt                                                                                      >  1:7483/1‑139 (MQ=255)                                           cgcAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTa                                                                                  >  1:20068/1‑139 (MQ=255)                                              aaaCTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAAt                                                                               >  2:542612/1‑139 (MQ=255)                                                        tattatCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                     <  2:451390/139‑1 (MQ=255)                                                        tattatCTCATCAACGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                     <  2:748376/139‑1 (MQ=255)                                                            atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCtt                                                                      >  1:112660/1‑134 (MQ=255)                                                            atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCtt                                                                      <  2:112660/134‑1 (MQ=255)                                                             tctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                                <  2:465005/139‑1 (MQ=255)                                                             tctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                                <  2:20068/139‑1 (MQ=255)                                                             tctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                                <  2:50823/139‑1 (MQ=255)                                                              ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGgcg                                                                                                     <  2:485804/101‑1 (MQ=255)                                                              ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGgcg                                                                                                     >  1:485804/1‑101 (MQ=255)                                                              ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGtat                                                               >  2:146135/1‑139 (MQ=255)                                                                 gTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACg                                                            >  1:784346/1‑139 (MQ=255)                                                                            aTACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTg                                                 <  1:481949/139‑1 (MQ=255)                                                                             tACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGa                                                <  2:784346/139‑1 (MQ=255)                                                                                    aTTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTcc                                         >  2:77934/1‑139 (MQ=255)                                                                                                   tCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGaa                          <  1:632118/139‑1 (MQ=255)                                                                                                   tCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGaa                          <  1:542612/139‑1 (MQ=255)                                                                                                    cTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAac                         <  1:497519/139‑1 (MQ=255)                                                                                                       gAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACAcg                      <  2:7483/139‑1 (MQ=255)                                                                                                          cagcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACAcgccg                   <  1:619449/139‑1 (MQ=255)                                                                                                          cagcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACAcgccg                   <  1:334326/139‑1 (MQ=255)                                                                                                          cagcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACAcgccg                   <  1:145869/139‑1 (MQ=255)                                                                                                          cagcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACAcgccg                   <  1:136440/139‑1 (MQ=255)                                                                                                             cagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGcac                >  1:337809/1‑139 (MQ=255)                                                                                                                gAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACAcc             <  2:337809/139‑1 (MQ=255)                                                                                                                 aGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                                <  2:385249/87‑1 (MQ=255)                                                                                                                 aGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                                >  1:385249/1‑87 (MQ=255)                                                                                                                       cGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGAtt      <  1:436957/139‑1 (MQ=255)                                                                                                                           ttAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTCgtt  >  2:49004/1‑139 (MQ=255)                                                                                                                                     |                                                                                                                                 AAAATTAGAACGGAAGGGCATCATTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAGCTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTCGTT  >  NC_000913/1419027‑1419287

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑