Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	3,547,518	G→A	E359K (GAA→AAA)	malT →	mal regulon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	3,547,518	0	G	A	100.0%	96.7 / NA	30	E359K (GAA→AAA)	malT	mal regulon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (16/14);  total (16/14)

GCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCGAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAAT  >  CP009273/3547455‑3547580                                                                |                                                               gcggAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGc                                                            <  1:250693/68‑1 (MQ=255)     aGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAAtt                                                        <  1:5216050/68‑1 (MQ=255)       cTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATtca                                                      <  1:6203464/68‑1 (MQ=255)        tGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATtcat                                                     <  1:3995228/68‑1 (MQ=255)               aaTCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATgcgc                                              <  1:4088022/68‑1 (MQ=255)                aTCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGTTTTCCCAGCAAAGCAATTCATCATGCGCt                                             >  1:1963008/1‑68 (MQ=255)                aTCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCt                                             >  1:86284/1‑68 (MQ=255)                   cACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTggc                                          >  1:1674438/1‑68 (MQ=255)                         gccgccGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAgg                                    >  1:1827575/1‑68 (MQ=255)                         gccgccGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAAATCATCATGCGCTGGCGGCAgg                                    >  1:248112/1‑68 (MQ=255)                            gccgcAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGa                                 >  1:4194269/1‑68 (MQ=255)                                cAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATgcg                             <  1:2027690/68‑1 (MQ=255)                                  gAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCAAGCGCTGGCGGCAGGCGATGCGCt                           <  1:580437/68‑1 (MQ=255)                                    aaGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGa                         <  1:2813214/68‑1 (MQ=255)                                    aaGCTGGATGGCCCAGGGATTACCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGa                         <  1:2480683/68‑1 (MQ=255)                                      gCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGAtg                       >  1:2495227/1‑68 (MQ=255)                                      gCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGAtg                       >  1:761745/1‑68 (MQ=255)                                            tGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTgcgc                 <  1:4362650/68‑1 (MQ=255)                                            tGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTgcgc                 <  1:5182868/68‑1 (MQ=255)                                             ggCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGcgcg                >  1:2854979/1‑68 (MQ=255)                                                ccAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGata             <  1:3937084/68‑1 (MQ=255)                                                    ggATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCt         <  1:5256677/68‑1 (MQ=255)                                                    ggATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCt         <  1:1015956/68‑1 (MQ=255)                                                     gATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTg        >  1:4404284/1‑68 (MQ=255)                                                     gATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTg        >  1:1924067/1‑68 (MQ=255)                                                     gATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTg        >  1:3413696/1‑68 (MQ=255)                                                     gATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTg        >  1:5962599/1‑68 (MQ=255)                                                          cccAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTaa   >  1:754380/1‑68 (MQ=255)                                                           ccAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAAt  >  1:4706050/1‑68 (MQ=255)                                                           ccAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAAt  >  1:1297881/1‑68 (MQ=255)                                                                |                                                               GCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCGAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAAT  >  CP009273/3547455‑3547580

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑