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%	92.9 / NA	28	E359K (GAA→AAA)	malT	mal regulon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (14/14);  total (14/14)

GCGAGTGGTTCTGCTATCACCCGCTGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCGAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTCGCTTAAGGCCCTGCCGTGG  >  CP009273/3547387‑3547649                                                                                                                                    |                                                                                                                                    gCGAGTGGTTCTGCTATCACCCGCTGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAAt                                                                                                                              >  1:1744219/1‑139 (MQ=255) gCGAGGGGTTCTGCTATCACCCGCTGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGAGGGCCCAGGGATTTCCCAGCAAAGCAAt                                                                                                                              >  1:3468315/1‑139 (MQ=255)                   aCCCGCTGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGCAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGCTTTCCCAGCAAAGCAATTCATCATGCGCTggcggc                                                                                                            >  1:3617205/1‑139 (MQ=255)                         tGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGa                                                                                                      <  1:3275720/139‑1 (MQ=255)                         tGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGa                                                                                                      <  1:2923797/139‑1 (MQ=255)                         tGTTGGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCg                                                                                                       <  1:3591688/138‑1 (MQ=255)                          gTTTGGTAACTGCCTGCGCCAGCGCGGCCAGTGGGAACTGGCGGCGGAGCTGCAGGAAATCAACCGTGCCGCAGCAGAAAGCCGGATGGCACAGGGATTTCCCAGAAAAGCAATTCATCCTGCGCTGGCGGCATGCGa                                                                                                      <  1:3981982/138‑1 (MQ=255)                                     tCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGAt                                                                                             >  1:788923/1‑136 (MQ=255)                                     tCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGAt                                                                                             >  1:694059/1‑136 (MQ=255)                                        tGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTgcg                                                                                       <  1:3199003/139‑1 (MQ=255)                                              aGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGatat                                                                                 >  1:25062/1‑139 (MQ=255)                                                cgcTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGatat                                                                                 >  1:2518214/1‑137 (MQ=255)                                                 gcTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATAtt                                                                                <  1:2961065/137‑1 (MQ=255)                                                 gcTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATAtt                                                                                <  1:345411/137‑1 (MQ=255)                                                        gTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTaa                                                                        >  1:2117755/1‑138 (MQ=255)                                                        gTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAAt                                                                       <  1:1297028/139‑1 (MQ=255)                                                              ccTGGCGGCTGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAACGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGTGATATTCTGCTTAATCACGcc                                                                 <  1:3554051/138‑1 (MQ=255)                                                                    ggcggAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAg                                                            >  1:2771455/1‑138 (MQ=255)                                                                            tGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCaa                                                   <  1:599007/139‑1 (MQ=255)                                                                            tGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCaa                                                   <  1:2198384/139‑1 (MQ=255)                                                                                    aTCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCg                                           <  1:3266799/139‑1 (MQ=255)                                                                                                        aaGCTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAagag                       <  1:1446206/139‑1 (MQ=255)                                                                                                           cTGGATGGCCCAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTc                     >  1:458556/1‑138 (MQ=255)                                                                                                                   cccAGGGATTTCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATAtt                                                                                <  1:1044614/71‑1 (MQ=255)                                                                                                                            ttCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTCGCTTAAGGCCCTGCCGTg   >  1:1144958/1‑139 (MQ=255)                                                                                                                             tCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATc                                                                      >  1:3216373/1‑71 (MQ=255)                                                                                                                             tCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTCGCTTAAGGCCCTGCCGTgg  >  1:756264/1‑139 (MQ=255)                                                                                                                             tCCCAGCAAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTCGCTTAAGGCCCTGCCGTgg  >  1:1881189/1‑139 (MQ=255)                                                                                                                                    |                                                                                                                                    GCGAGTGGTTCTGCTATCACCCGCTGTTTGGTAACTTCCTGCGCCAGCGCTGCCAGTGGGAACTGGCGGCGGAGCTGCCGGAAATCCACCGTGCCGCCGCAGAAAGCTGGATGGCCCAGGGATTTCCCAGCGAAGCAATTCATCATGCGCTGGCGGCAGGCGATGCGCTGATGCTGCGCGATATTCTGCTTAATCACGCCTGGAGTCTGTTCAACCATAGCGAACTGTCGCTGCTGGAAGAGTCGCTTAAGGCCCTGCCGTGG  >  CP009273/3547387‑3547649

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑