Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,554,511	T→C	L476P (CTG→CCG)	malT →	mal regulon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,554,511	0	T	C	100.0%	160.9 / NA	48	L476P (CTG→CCG)	malT	mal regulon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/17);  total (31/17)

GAAGTTAACACCCTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACTGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGCCAGCACGATGTC  >  NC_000913/3554363‑3554653                                                                                                                                                     |                                                                                                                                               gAAGTTAACACCCTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCgg                                                                                                                                              >  1:380073/1‑151 (MQ=255)   aGTTAACACCCTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGa                                                                                                                                             >  1:558201/1‑150 (MQ=255)            ccTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTgcc                                                                                                                                    >  1:5534/1‑150 (MQ=255)             cTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTgccgc                                                                                                                                  >  1:104311/1‑151 (MQ=255)                cTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAAAAGACACCATGCACGCAGAATTTAACGATCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCgg                                                                                                                               >  2:322473/1‑151 (MQ=255)                   gCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGc                                                                                                                             >  1:257260/1‑150 (MQ=255)                            gAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCtat                                                                                                                    >  2:790905/1‑150 (MQ=255)                            gAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCta                                                                                                                     <  1:559123/149‑1 (MQ=255)                              aCATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGc                                                                                                                 <  1:447872/151‑1 (MQ=255)                               cATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGcc                                                                                                                >  1:813786/1‑151 (MQ=255)                                       cAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATtgtg                                                                                                        >  2:547118/1‑151 (MQ=255)                                       cAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAAAGCTGCCGCCGGGCTGGTTCTATAGCCGCATtgtg                                                                                                        >  2:817078/1‑151 (MQ=255)                                            aCATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAAc                                                                                                   >  2:596295/1‑151 (MQ=255)                                              aTCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCt                                                                                                 <  1:592730/151‑1 (MQ=255)                                                cAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCg                                                                                               <  1:850893/151‑1 (MQ=255)                                                  gagaAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGt                                                                                             >  1:291010/1‑151 (MQ=255)                                                        acacCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTggg                                                                                       >  2:366595/1‑151 (MQ=255)                                                        acacCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTggg                                                                                       <  1:841056/151‑1 (MQ=255)                                                           ccATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGa                                                                                    <  2:193434/151‑1 (MQ=255)                                                            cATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGa                                                                                    >  1:438833/1‑150 (MQ=255)                                                              tGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGt                                                                                 >  2:680803/1‑151 (MQ=255)                                                                          ttAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGt                                                                                 <  2:373123/139‑1 (MQ=255)                                                                          ttAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGt                                                                                 >  1:373099/1‑139 (MQ=255)                                                                            aaCGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCaa                                                                     >  2:173636/1‑149 (MQ=255)                                                                            aaCGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGGGCTGCACTGCAAAg                                                                   <  2:440430/151‑1 (MQ=255)                                                                              cGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGc                                                                 >  1:825373/1‑151 (MQ=255)                                                                              cGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGAGGCAACATCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGc                                                                 >  2:575276/1‑151 (MQ=255)                                                                                ctctGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCg                                                                >  2:327601/1‑150 (MQ=255)                                                                                  ctGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAAt                                                             >  1:125707/1‑151 (MQ=255)                                                                                       cgcCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGAcc                                                        <  2:700594/151‑1 (MQ=255)                                                                                          ccAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGc                                                     <  1:775439/151‑1 (MQ=255)                                                                                           cAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCt                                                    >  1:121212/1‑151 (MQ=255)                                                                                            aGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTc                                                   <  1:105858/151‑1 (MQ=255)                                                                                              gTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCAc                                                 >  2:675118/1‑151 (MQ=255)                                                                                                    aTTAACGCTGGTAATCCGGATGAAGCTGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGGCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAACTGACCCGCGCACTgg                                              >  1:240596/1‑148 (MQ=255)                                                                                                       aaCGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTa                                         >  2:141690/1‑150 (MQ=255)                                                                                                          gATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATgc                                     >  2:591227/1‑151 (MQ=255)                                                                                                               tAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATgcagca                                 >  1:605834/1‑150 (MQ=255)                                                                                                                   ccGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAAc                              <  1:315133/149‑1 (MQ=255)                                                                                                                   ccGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCg                            <  2:456424/151‑1 (MQ=255)                                                                                                                   ccGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCg                            >  2:671285/1‑151 (MQ=255)                                                                                                                    cGGATGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCg                            >  2:470801/1‑150 (MQ=255)                                                                                                                       aTGAAGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAAc                         <  1:795772/150‑1 (MQ=255)                                                                                                                           aGCGGAACGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATg                    >  2:740456/1‑151 (MQ=255)                                                                                                                                  cGGCTGGCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGcc             >  2:600381/1‑151 (MQ=255)                                                                                                                                       ggCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGCCAGCa         <  1:183313/150‑1 (MQ=255)                                                                                                                                       ggCAAAACTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGCCAGCAc        <  2:121235/151‑1 (MQ=255)                                                                                                                                             aCTGGCACCGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGCCAGCACGATGTc  <  2:135227/151‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                               GAAGTTAACACCCTGCTAGCCCGTGCTGAACATGAAATCAAGGACATCAGAGAAGACACCATGCACGCAGAATTTAACGCTCTGCGCGCCCAGGTGGCGATTAACGATGGTAATCCGGATGAAGCGGAACGGCTGGCAAAACTGGCACTGGAAGAGCTGCCGCCGGGCTGGTTCTATAGCCGCATTGTGGCAACCTCGGTGCTGGGTGAAGTGCTGCACTGCAAAGGCGAATTGACCCGCTCACTGGCGCTAATGCAGCAAACCGAACAGATGGCACGCCAGCACGATGTC  >  NC_000913/3554363‑3554653

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑