Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,092,703	A→G	F41L (TTC→CTC)	frvA ←	putative PTS enzyme IIA component FrvA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,092,703	0	A	G	100.0%	59.0 / NA	22	F41L (TTC→CTC)	frvA	putative PTS enzyme IIA component FrvA
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (12/10);  total (12/10)

GACACAGTGTGCCGATGATTTTGACCTGATCCTCTTCGCCGCTTTGCGGCACGCCGAGGCAGATCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAACTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATATTTTAATCAATTGTAATGGTGGAGCGATTAAGTGATGAGAGGCGATATGTCGGTAAACAATGACAATTTGAGACAGAGTGAAAGGTCAGATTTGCGGAGTAATG  >  NC_000913/4092469‑4092949                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                       gACACAGTGTGCCGATGATTTTGACCTGATCCTCTTCGCCGCTTTGCGGCACGCCGAGGCAGATCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGCGTc                                                                                                                                                                                                                                            >  1:83514/1‑247 (MQ=255)                    tttGCCCTGTTCCTCTTCCCCGCTTTGCGGCACGCCGAGGCAGGTCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGTCACGGCGACACCGGAACCAAATCCAGGAGAGTGCATTTTTTCGCGCAGCAGCAGGTTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAAc                                                                                                                                                                                                                      <  1:251726/250‑1 (MQ=255)                       gACCTGATCCTCTTCTCCGCTTTGCGGCACGCCGAGGCAGATCCAGCATTTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTa                                                                                                                                                                                                                  <  1:276062/251‑1 (MQ=255)                                                ngCACGCCGAGGCAGATCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACgg                                                                                                                                                                                          >  1:99249/2‑250 (MQ=255)                                                    cGCCGAGGCAGATCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCCGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATa                                                                                                                                                                                      >  1:211417/1‑250 (MQ=255)                                                                               cTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCTAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACTTCGACACCTGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGa                                                                                                                                                                                                                                       <  1:438446/174‑1 (MQ=255)                                                                               cTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTCCGGGCGAATAATACGCACGGATGTTTAACGAAAGAGCTTTTACCGTGCGGAACGGCAAAACCGGAACCAAATCCAGTCGAGTGCATTTTTTAGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGGGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTc                                                                                                                                                           >  1:338395/1‑250 (MQ=255)                                                                                 tCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGTACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCTTAACCAAAGCCAGTAGAGTGCATTGTGTCGCGCAGCAGCAGGGTTTGCAGTAGCTGGTGTGAGTCTGTGATAAAACCGTTTTGTACCGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTc                                                                                                                                                           <  1:262298/248‑1 (MQ=255)                                                                                   gCCATCGCTGGCTTTCCAGTCAATAGCCGGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGCCACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGcn                                                                                                                                                                          <  1:298062/231‑2 (MQ=255)                                                                                          cTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGACGGATCACACGAACGATTGTTTAACACCGGCGCTCTTACCGTGCGGAACGGCGACACCGGAACCACAACCAGTCGAGTGCATTTTTTCGAGCAGCAGCAGGGTTTGCCGGAGCTGGTGTGAGTAGGTAATAAACCCGTTTTGTAACGCTATTGTCGTCAACTGCTTCAGAAc                                                                                                                                                                                            >  1:340738/1‑206 (MQ=255)                                                                                           tGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGtgtg                                                                                                                                                                                                                                                <  1:202843/153‑1 (MQ=255)                                                                                                                  ncTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAAc                                                                                                                                                                                                                      >  1:299788/2‑156 (MQ=255)                                                                                                                            nnaannnnNCGANCGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAAc                                                                                                                                                                                                                      <  2:299788/144‑1 (MQ=255)                                                                                                                             gAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCCTTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTCAGAGCTGCCATTAATCGGAc                                                                                                                       >  1:182092/1‑240 (MQ=255)                                                                                                                                           gttgttTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCCTTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGTTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATATTTTAATCAAtt                                                                                              >  1:493934/1‑251 (MQ=255)                                                                                                                                               tttAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAACTTCACCAGCCTGCATTTTTTCGCGCCCCACGAGAGTTTGCAGAAGCTGGAGTGCGTCGGTGCTAAACAAGTTTTCTAACGCTATTGCTGCCAACAGCTTCAAAACGGAATAAGCTCCCTTGCCCTACATATTCCGGACAACACAGCCTGCCGTAAGAGCTGCCAATATTCGGACTCCATCAAATATATTTTAATCAATTGTa                                                                                           >  1:460353/1‑250 (MQ=255)                                                                                                                                                                              ncGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAAc                                                                                                                                                                                                                                 >  1:319487/2‑85 (MQ=255)                                                                                                                                                                              gCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAAc                                                                                                                                                                                                                                 <  2:319487/85‑1 (MQ=255)                                                                                                                                                                              gCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTCACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATAtt                                                                                                        >  1:209522/1‑206 (MQ=255)                                                                                                                                                                                      ggAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAGCTTGTGTGAGTCGGTGATAAAACCGTTTTGGAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAAt                                                                                                                                                        <  1:278171/150‑1 (MQ=255)                                                                                                                                                                                                                       cagcagcagGGCTTGCAGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAACGCCATTGCCCTGAATATTCAGGACACTACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATATTTTAATCAATTGTAATGGTGGAGCGATTAAGTGATGAGAGGCGATATGTCGGTAAACAATGACAATTTGAGACAGAGTGAAAGGTc                   >  1:408452/1‑250 (MQ=255)                                                                                                                                                                                                                                       aGGAGCTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATATTTTAATCAATTGTAATGGTGGAGCGATTAAGTGATGAGAGGCGATATGTCGGTAAACAATGACAATTTGAGACAGAGTGAAAGGTCAGATTTGCGGAGTAATg  <  1:151583/251‑1 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                       GACACAGTGTGCCGATGATTTTGACCTGATCCTCTTCGCCGCTTTGCGGCACGCCGAGGCAGATCCAGCAATTGACGTCTTCGCCATCGCTGGCTTTCCAGTCAATAGCCTGCGCTTTGCGGGCGAATAATACGAACGGTTGTTTAACGCAGGCGCTTTTACCGTGCGGCACGGCGACACCGGAACCAAATCCAGTAGAGTGCATTTTTTCGCGCAGCAGCAGGGTTTGCAGGAACTGGTGTGAGTCGGTGATAAAACCGTTTTGTAACGCTATTGTCGCCAACTGCTTCAGAACGGAATAAGCGCCATTGCCCTGAATATTCAGGTCAATACAGCTTGCAGTAAGAGCTGCCATTAATCGGACTCCATAAAATATATTTTAATCAATTGTAATGGTGGAGCGATTAAGTGATGAGAGGCGATATGTCGGTAAACAATGACAATTTGAGACAGAGTGAAAGGTCAGATTTGCGGAGTAATG  >  NC_000913/4092469‑4092949

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑