Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,578,143	0	A	C	54.0%	29.9 / 54.2	37	L79V (TTA→GTA)	maeB	malic enzyme: putative oxidoreductase/phosphotransacetylase
Reads supporting (aligned to +/- strand):  ref base A (12/5);  new base C (0/20);  total (12/25)
Fisher's exact test for biased strand distribution p-value = 3.34e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.68e-05

CGAGCGCGGCGACAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAGCGCCAGAT  >  NC_000913/2577999‑2578277                                                                                                                                                     |                                                                                                                                         cGAGCGCGGCGACAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑Ca                                                                                                                                    <  2:82166/150‑1 (MQ=255) cGAGCGCGGCGACAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑Ca                                                                                                                                    <  1:671364/150‑1 (MQ=255)  gAGCGCGGCGACAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑c                                                                                                                                 >  2:686769/1‑151 (MQ=255)            aCAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTAc                                                                                                                       >  2:509410/1‑151 (MQ=255)                          tttGCCCGGGTCGAGTTCGTCACCTTAAATGCAAAATACATCAACCCCGGAGAATTTCTAAAACAGACCCCCCTTCCCTT‑CCACCCCCGT‑TTTGCCTGCCAGCGCG‑CAAATGTT‑GCCAACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCa                                                                                                           <  2:151181/149‑1 (MQ=255)                                 ggggCGATTTCGACACCTTAAAGATAAAATACTCAAATCCGGGCAATTTTCTAAAACAAAACGCCCTTCCTTC‑CCATCACGGG‑TTGGCCGGCCGGCGCG‑CCAATGTG‑CCCAACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGccacca                                                                                                  <  1:423652/151‑1 (MQ=255)                                 gggTCGGTTTCCTAAACTTCAATGACAAAAACATCAACCCCGGCGATTGCCTTAAACACAACGCCCTTCCCTC‑CCACCCCCGT‑TTTGCCTGCCAGCGCC‑CCAATGTT‑CCCTAACCC‑AAG‑CGCCGCCGTACCGTTAGAGATCACCGccacca                                                                                                  <  2:169210/151‑1 (MQ=255)                                 gggTCGATTTCGTCACCTTAAATGTAAAATACATCAACCCCGGCGATTTTCTAAAACAGAACGCCCTTGCTTT‑CCATCCCCGT‑TTTGCCGGCCAGCGCC‑CAAATTTT‑GCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGccacca                                                                                                  <  1:407147/151‑1 (MQ=255)                                       aGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTAc                                                                                            >  2:198824/1‑151 (MQ=255)                                             tCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCggg                                                                                      >  2:633888/1‑151 (MQ=255)                                               aactaaaaTGTAAAATACAACAACCCGGGCGATTTTCTAAAAAAGACCCCCCTTGCCTC‑CCACCCCCGT‑TTTGCCTGCCAGCGCC‑CAAATGTT‑CCCAACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGc                                                                                     <  1:633925/144‑1 (MQ=255)                                                  ttaaaTGTAAAATACATAACCCCCGGCGAATTTCTAAAACAAACCGCCCTTGCTTC‑CAATCCCCGG‑TTGGCCTGCCAGCGCG‑CAAATGTT‑GCCTACCCC‑CAC‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCgg                                                                                   <  1:387015/146‑1 (MQ=255)                                                     aatttaaaaTACATCAACCCCGGCAATTTTCTAAAACAGACCCCCCTTCCCTC‑CCACCCCCGT‑TTTGCCTCCCAGCGCC‑CCAATTTT‑CCCTACCCC‑CAG‑CCCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGta                                                                                 <  1:509434/142‑1 (MQ=255)                                                     aatttaaaaTACACCAACCCCGGCGAATTCCTAAAACAGAACGCCTTGGCCTT‑CCGCCCCCGG‑TTGCCCGGCAAGGGCC‑CCAGTGTT‑CCGAACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGtat                                                                                <  2:99803/143‑1 (MQ=255)                                                     aaggtaaaaTACATAAACCCCGGCAATTTTCTAAAAAAGACCCCCCTGCCCTC‑CCACCCCCGG‑TTTGCCGCCCAGCGCG‑CCATTGTT‑CCCTACCCC‑AAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGt                                                                                  <  1:313714/141‑1 (MQ=255)                                                       tGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATAttt                                                                            >  1:454292/1‑151 (MQ=255)                                                        gtaaactccatcatCCCCGGCCTTTTTCTAAAAAAGAACCCTCTTGCCTA‑CCACCGCGGG‑TTTCCCGCCCAGCCCG‑ACATTGTT‑‑CCTCACCCGCAG‑AACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTc                                                                                         <  2:514676/129‑1 (MQ=255)                                                           aaaTACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGt                                                                          >  2:166673/1‑149 (MQ=255)                                                                  tCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCtttt                                                                  >  1:6315/1‑150 (MQ=255)                                                                    aaccccGGCGAATTTCTAAAACAGAACGCCCTTGCCTC‑CCACCCCCGG‑TTTGCCTGCCAGCGCG‑CCATTTTT‑CCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTa                                                                 <  1:430552/146‑1 (MQ=255)                                                                       cccGGCAATTTGCTTAAACAGACCCCCCTTCCCTT‑CCACCCCCGT‑TTGGCCTCCCCGCGCG‑CAAATGTT‑GTCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACggg                                                            <  2:752416/151‑1 (MQ=255)                                                                          ggCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCt                                                         >  1:559304/1‑151 (MQ=255)                                                                              aaTTTCTAAAACAGAACCCCCTTCCCTT‑CCATCCCCGG‑TTTCCCTCCCAGCGCG‑CAAATGTT‑CCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCttttt                                                     <  1:219950/151‑1 (MQ=255)                                                                               attttctAAAAAAAACCCCCTTTCCTT‑CCCACCCCGGTTTTCCCGGCCGGCGCG‑CCAATTTT‑GCTAACCCC‑CAG‑CGCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCtttt                                                      <  2:518365/144‑1 (MQ=255)                                                                                      aaaaAGACCGCCTTTCCCTC‑CCATCCCCGT‑TTTCCCTGCCAGCGCC‑CCAATTTT‑GCCAACCCC‑CAC‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCa                                             <  1:686811/151‑1 (MQ=255)                                                                                       aaaaaaaccgccTTTCCTTCCCACCCCCGG‑TTTGCCTGCCAGCGCG‑CAAATTTT‑CCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTc                                              <  2:654889/140‑1 (MQ=255)                                                                                        aCAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCa                                             >  1:579191/1‑149 (MQ=255)                                                                                              cccccTTCCCTC‑CCATCCCCGT‑TTTGCCTCCCAGCGCG‑CAATTGTT‑CCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAgg                                     <  1:306824/149‑1 (MQ=255)                                                                                              cGCCCTTGCCTT‑CCATCCCCGT‑TTTGCCTGCCGGCGCG‑CAATTGTT‑CCCAACCCC‑CAG‑CCCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAgg                                     <  1:291533/151‑1 (MQ=255)                                                                                                cccTTCCCTC‑CCACCCCCGT‑TTTCCCTGCCAGCGCC‑CAAATGTT‑GCCTACCCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGt                                    <  2:98039/150‑1 (MQ=255)                                                                                                      ccTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCG‑TAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAAc                            >  1:112340/1‑151 (MQ=255)                                                                                                          tcccaccccGG‑TTTGGCCGCCCACGCCCCCAATGTG‑CCCGACCCC‑CGC‑CGCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCaa                             <  2:34191/142‑1 (MQ=255)                                                                                                                  ccg‑TTTGCCTGCCACGCCC‑CCAAATTT‑TCCCAACCC‑CAGCCTCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCt                        <  2:654236/144‑1 (MQ=255)                                                                                                                                   gcg‑cCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAGCGcc      >  2:368925/1‑147 (MQ=255)                                                                                                                                     g‑cCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAGCGcc      >  1:266048/1‑145 (MQ=255)                                                                                                                                      cacattGTT‑GCTTACCCC‑CAA‑CCCCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAGCGCCAGAt  <  2:759846/144‑1 (MQ=255)                                                                                                                                       ccAATTTTGGCCTACCCC‑CGC‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAgc         <  2:739198/142‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                         CGAGCGCGGCGACAACTTCAATAAATTTGTCCGGGTCGAGTTCGTCAACTTCAATGTCAAATACATCAATCCCGGCGAATTTCTTAAACAGAACGCCCTTGCCTT‑CCATCACCGG‑TTTGCCTGCCAGCGCG‑CCAATGTT‑GCCTAACCC‑CAG‑CACCGCCGTACCGTTAGAGATCACCGCCACCAGGTTACCTCGGGCGGTATATTTGTAGGCTTTTAACGGGTCTTTTTCGATTTCAAGACAAGGTGCGGCAACGCCTGGTGAGTAGGCCAGCGCCAGAT  >  NC_000913/2577999‑2578277

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑