Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,454,025	T→A	S458S (TCA→TCT)	gspA ←	Type II secretion system protein GspA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,454,025	0	T	A	100.0%	92.3 / NA	26	S458S (TCA→TCT)	gspA	Type II secretion system protein GspA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (14/12);  total (14/12)

CGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTACCAACAAGGGACG  >  NC_000913/3453953‑3454102                                                                         |                                                                              cGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGcc                                                                       <  2:658368/81‑1 (MQ=255)  ggggAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGcc                                                                       >  2:658405/1‑80 (MQ=255)  ggggAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGcc                                                                       >  2:658404/1‑80 (MQ=255)    ggAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCcaac                                                                    <  1:658369/81‑1 (MQ=255)      aaaTATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCcaacaa                                                                  >  1:658393/1‑81 (MQ=255)         tatTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAacac                                                               <  2:658370/81‑1 (MQ=255)                  cATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGttt                                                      >  1:658406/1‑81 (MQ=255)                       cGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAg                                                 >  2:658400/1‑81 (MQ=255)                         atatAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAgtg                                               >  1:658395/1‑81 (MQ=255)                           ataAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAgtggt                                             >  1:658399/1‑81 (MQ=255)                            taAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAagtagt                                             <  2:658371/80‑1 (MQ=255)                                tAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCtt                                        <  2:658372/81‑1 (MQ=255)                                     aCTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCtttttt                                    >  2:658408/1‑80 (MQ=255)                                        ctcCCCTGCCACCTGCCAGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGaaa                                >  2:658401/1‑81 (MQ=255)                                              tgccacctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCtt                          >  1:658412/1‑81 (MQ=255)                                               gccacctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCtt                          >  2:658430/1‑80 (MQ=255)                                                 cacctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTAt                       >  2:658420/1‑81 (MQ=255)                                                 cacctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTAt                       <  1:658373/81‑1 (MQ=255)                                                  acctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTAtt                      <  2:658374/81‑1 (MQ=255)                                                    ctgccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTAtttt                    <  1:658375/81‑1 (MQ=255)                                                       ccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTAttttt                   <  2:658377/79‑1 (MQ=255)                                                       ccaGAGATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTc                 <  1:658376/81‑1 (MQ=255)                                                         agagATGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTa               >  1:658402/1‑81 (MQ=255)                                                           agaTGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTAcc             <  1:658378/81‑1 (MQ=255)                                                             aTGTACTAACGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTACcaa           >  2:658403/1‑81 (MQ=255)                                                                      cGTAGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTACCAACAAGGGACg  <  2:658379/81‑1 (MQ=255)                                                                         |                                                                              CGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTGGCTTTTTTGAAATTGCTTTATTTTTTCTACCAACAAGGGACG  >  NC_000913/3453953‑3454102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑