Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,974,914	Δ1 bp	coding (628/1419 nt)	araE ←	arabinose‑proton symporter AraE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,974,914	0	G	.	100.0%	192.0 / NA	44	coding (628/1419 nt)	araE	arabinose‑proton symporter AraE
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (26/18);  total (26/18)

TTACGGTTGATCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGACGCCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCGGATAAA  >  NZ_CP009273/2974781‑2975047                                                                                                                                      |                                                                                                                                      ttACGGTTGATCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCtt                                                                                                                                 <  1:184288/139‑1 (MQ=255)          aTCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCgccag                                                                                                                        >  2:561094/1‑139 (MQ=255)          aTCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCgccag                                                                                                                        >  2:465556/1‑139 (MQ=255)          aTCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCgccag                                                                                                                        >  1:590671/1‑139 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCgccagcca                                                                                                                     <  2:280933/131‑1 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCgccagcca                                                                                                                     >  1:280933/1‑131 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  2:96086/1‑139 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  2:418196/1‑139 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  2:254738/1‑139 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  1:549641/1‑139 (MQ=255)                     tGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  2:493327/1‑139 (MQ=255)                      gCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGc                                                                                                             >  2:176905/1‑138 (MQ=255)                       cccAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTa                                                                                                           >  1:534529/1‑139 (MQ=255)                       cccAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTa                                                                                                           >  1:123428/1‑139 (MQ=255)                        ccAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTAt                                                                                                          <  1:465556/139‑1 (MQ=255)                          aaCCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTAttt                                                                                                        <  1:517283/139‑1 (MQ=255)                          aaCCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTAttt                                                                                                        >  1:414191/1‑139 (MQ=255)                          aaCCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTAttt                                                                                                        >  2:586928/1‑139 (MQ=255)                             cGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTgg                                                                                                      >  1:48021/1‑138 (MQ=255)                               cccTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAg                                                                                                   >  1:290841/1‑139 (MQ=255)                               cccTGTTTTAACCTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAg                                                                                                   >  2:457216/1‑139 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCa                                                                                                    >  2:638878/1‑123 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCa                                                                                                    <  1:638878/123‑1 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGaa                                                                                                <  1:457152/127‑1 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGaa                                                                                                >  2:457152/1‑127 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGaa                                                                                     >  2:488228/1‑138 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGaa                                                                                     >  1:636363/1‑138 (MQ=255)                                              aGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTC‑ATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGaata                                                                                   <  1:586457/139‑1 (MQ=255)                                                    tCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAACcag                                                                              >  2:134724/1‑139 (MQ=255)                                                                          ctcGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCaa                                                          <  2:138722/137‑1 (MQ=255)                                                                             gcgcTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGa                                                        <  2:432743/136‑1 (MQ=255)                                                                                         aCGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTgcg                                         <  1:375137/139‑1 (MQ=255)                                                                                                 cgcAGCATACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGtt                                 <  1:160032/139‑1 (MQ=255)                                                                                                   cagcaTACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTAc                               <  2:199470/139‑1 (MQ=255)                                                                                                   cagcaTACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATGTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTAc                               <  2:290841/139‑1 (MQ=255)                                                                                                      caTACGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGc                            >  2:520095/1‑139 (MQ=255)                                                                                                         aCGCAATACTTCTTCCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCta                          >  1:191288/1‑138 (MQ=255)                                                                                                                    cttcCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACg                <  1:96086/137‑1 (MQ=255)                                                                                                                    cttcCGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGc               <  2:556579/138‑1 (MQ=255)                                                                                                                       ccGCCTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCt              <  1:457216/136‑1 (MQ=255)                                                                                                                          ccTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCg        >  2:467595/1‑139 (MQ=255)                                                                                                                          ccTCAATATGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCg        >  1:286587/1‑139 (MQ=255)                                                                                                                                tatGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCGGATaaa  <  2:549641/139‑1 (MQ=255)                                                                                                                                tatGAC‑CCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCGGATaaa  <  1:283144/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                      TTACGGTTGATCTTAAACAGTGCCCAACCGCCCTGTTTTAACTTCAGGCTTTCACGAATTTCGTTGAGTTCTTCTCGCGCTTTTTCCGACGTATCGCGCAGCATACGCAATACTTCTTCCGCCTCAATATGACGCCCCTTTTCCGCCAGCCAGCGCGGGCTATTTGGCAGGAAGACTACCAGAATAATCAGCAGAACTGCTGGTAAAGCAAGAACCCCCAACATTGCGCGCCAGTTACCGCTATAACTGAACGCTGTATCGGATAAA  >  NZ_CP009273/2974781‑2975047

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑