Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,599,483	A→C	D59A (GAT→GCT)	lsrB →	autoinducer 2 ABC transporter substrate‑binding protein LsrB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,599,483	0	A	C	100.0%	104.3 / NA	28	D59A (GAT→GCT)	lsrB	autoinducer 2 ABC transporter substrate‑binding protein LsrB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (14/14);  total (14/14)

ATTGCATTTATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGATGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGTCAATCAAGGTTATAA  >  NZ_CP009273/1599395‑1599564                                                                                         |                                                                                  aTTGCATTTATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCtg                                                                                 <  1:481827/91‑1 (MQ=255) aTTGCATTTATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCtg                                                                                 <  1:794653/91‑1 (MQ=255)         tATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTac                                                                         >  1:504709/1‑91 (MQ=255)         tATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTac                                                                         >  1:822604/1‑91 (MQ=255)              ccAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACAGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACgg                                                                    >  1:841519/1‑91 (MQ=255)               cAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACggg                                                                   >  2:792405/1‑91 (MQ=255)               cAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACggg                                                                   >  2:292845/1‑91 (MQ=255)               cAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACggg                                                                   <  2:133030/91‑1 (MQ=255)                aaaCTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGc                                                                  <  1:185217/91‑1 (MQ=255)                     ggTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACa                                                             <  2:624267/91‑1 (MQ=255)                       ttGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGa                                                           >  1:303120/1‑91 (MQ=255)                              gggATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAgt                                                    <  2:592369/91‑1 (MQ=255)                               ggATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAgtg                                                   >  2:674865/1‑91 (MQ=255)                                    ttttACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCt                                              <  1:674865/91‑1 (MQ=255)                                    ttttACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCGGTGACCTGCGCCGGGCCGACAGAACCCAGTCTTTCt                                              <  1:856033/91‑1 (MQ=255)                                      ttACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTgg                                            <  2:852829/91‑1 (MQ=255)                                        aCCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTc                                          <  1:35491/91‑1 (MQ=255)                                            gCGGTGGCAACGGCGCCCAACAAGCGGGGAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGt                                      <  2:507662/91‑1 (MQ=255)                                                  gCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGtt                                <  2:402013/91‑1 (MQ=255)                                                       ggCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCtg                                                                                 >  1:724291/1‑37 (MQ=255)                                                       ggCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGCtg                                                                                 <  2:724291/37‑1 (MQ=255)                                                                    cGGGTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGtcaa              <  2:841519/91‑1 (MQ=255)                                                                       gTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGtcaatca           >  1:511608/1‑91 (MQ=255)                                                                       gTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGtcaatca           >  1:120694/1‑91 (MQ=255)                                                                       gTAAAGAGCTGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGtcaatca           >  1:110187/1‑91 (MQ=255)                                                                                tGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGTCAATCAAGGTTATaa  >  2:2205/1‑91 (MQ=255)                                                                                tGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGTCAATCAAGGTTATaa  >  1:388333/1‑91 (MQ=255)                                                                                tGGGCGTTGCTGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGTCAATCAAGGTTATaa  >  2:840433/1‑91 (MQ=255)                                                                                         |                                                                                  ATTGCATTTATTCCCAAACTGGTTGGCGTGGGATTTTTTACCAGCGGTGGCAACGGCGCACAACAAGCGGGTAAAGAGCTGGGCGTTGATGTGACCTACGACGGGCCGACAGAACCCAGTGTTTCTGGTCAGGTACAGTTGATTAATAACTTCGTCAATCAAGGTTATAA  >  NZ_CP009273/1599395‑1599564

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑