Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,185,199	0	T	G	41.0%	55.9 / 12.3	39	T35P (ACC→CCC)	thiM	hydoxyethylthiazole kinase
Reads supporting (aligned to +/- strand):  ref base T (8/15);  new base G (16/0);  total (24/15)
Fisher's exact test for biased strand distribution p-value = 2.52e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCACGCATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCTGGTGGTCC  >  NC_000913/2185051‑2185346                                                                                                                                                     |                                                                                                                                                    gcaCGCATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGttt                                                                                                                                                   <  2:317511/151‑1 (MQ=255)  caCGCATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGttt                                                                                                                                                   <  2:66739/150‑1 (MQ=255)  caCGCATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTg                                                                                                                                                  <  2:76667/151‑1 (MQ=255)      cATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGcacc                                                                                                                                              >  2:576368/1‑151 (MQ=255)       aTCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCAAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGcacc                                                                                                                                              >  2:509286/1‑150 (MQ=255)              gAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCAcatca                                                                                                                                        <  1:14064/149‑1 (MQ=255)                 cgcgTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTgg                                                                                                                                    >  1:26380/1‑150 (MQ=255)                  gcgTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTgg                                                                                                                                    >  2:81794/1‑149 (MQ=255)                         tGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGctttgaacaaaacctt                                                                                                                                      >  2:635715/1‑127 (MQ=255)                          gCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTg                                                                                                                          <  1:426468/151‑1 (MQ=255)                           cGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAAGGTTGCACCACATCAtttg                                                                                                                                    >  1:239836/1‑138 (MQ=255)                                  gtgCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAagag                                                                                                                  <  2:228222/151‑1 (MQ=255)                                      cAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCCCCACATCATTGGTCATGCAGTGCACAAGAgggg                                                                                                               >  1:392801/1‑150 (MQ=255)                                        aCGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAAt                                                                                                            <  1:305032/151‑1 (MQ=255)                                            tAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGGGCACAAGAGGGGGATGtt                                                                                                         >  1:625680/1‑150 (MQ=255)                                             aaTCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTg                                                                                                        <  2:200589/150‑1 (MQ=255)                                              aTCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGGATggt                                                                                                         >  1:240183/1‑146 (MQ=255)                                                caacaaGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTg                                                                                                     <  2:172642/150‑1 (MQ=255)                                                 aacaaGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTg                                                                                                     >  2:65543/1‑149 (MQ=255)                                                                     cGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCa                                                                               <  2:14473/151‑1 (MQ=255)                                                                           ctgactgGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCCCATCATTGGGCATGCAGTGCACAAGAGGGGGATGTTGGTGGAAAAGGGGTAAAGCGTGCGCAGAtt                                                                           >  1:605204/1‑149 (MQ=255)                                                                                 ggCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGaa                                                                   <  2:227216/151‑1 (MQ=255)                                                                                  gCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGaa                                                                   >  1:151727/1‑150 (MQ=255)                                                                                      ctTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTTGTCATGCAGGGGACAAGAGGGGAATGTTGGGGAAAAAGGGGTAACGCGTGCGCAGATTGCGCTGAAccc                                                                >  1:242030/1‑149 (MQ=255)                                                                                              tCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGGATGTTGGGGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGGCg                                                       >  2:244650/1‑150 (MQ=255)                                                                                              tCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGGCATGCAGTGCACAAGGGGGGAATGTTGGGGAAAAAGGTGTAAAGCGTGCGCAGATTGAGCTGAAACCAGCAgg                                                          >  1:169132/1‑147 (MQ=255)                                                                                                gATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTTGTCATGCAGTGCACAAGAGGGGGATGTTGGGGAAAAAGGGGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGa                                                      >  1:503444/1‑149 (MQ=255)                                                                                                     ccATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCAt                                               <  2:127707/151‑1 (MQ=255)                                                                                                       aTCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGGGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCAt                                               >  2:145820/1‑149 (MQ=255)                                                                                                             ggCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGGGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGGCGACTTGCATAGttt                                          >  1:294224/1‑148 (MQ=255)                                                                                                              gCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTc                                      >  2:58811/1‑151 (MQ=255)                                                                                                                 aTGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCt                                    <  2:158878/150‑1 (MQ=255)                                                                                                                       cGAGCGCCAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGGGGAAAAGGGGGAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGGCGACTTGCATAGTTTGCTCCTGCCATa                              >  1:336876/1‑150 (MQ=255)                                                                                                                             ccAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATTCTTGGTCAAGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGGGCTGAAACCAGCAGGGCGACTTGCATAGTTTGCTCCTGCCATAACGTg                         >  2:628277/1‑149 (MQ=255)                                                                                                                             ccAGCAAGGTATTGGCGGTAAAGGGTTGCACCACATCATTGGTCATGCAGGGCACAAGAGGGGAATGTTGGGGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCCGGGCGACTTGCATAGGTTGCTCCTGCCATAACGTg                         >  1:448869/1‑149 (MQ=255)                                                                                                                              cAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTgaa                       <  2:233414/150‑1 (MQ=255)                                                                                                                               aGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTgaaga                     <  2:617105/151‑1 (MQ=255)                                                                                                                                       aTTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATg              <  1:368451/150‑1 (MQ=255)                                                                                                                                             ggTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCtggt       <  1:415219/151‑1 (MQ=255)                                                                                                                                                aaaGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCTggtggt    >  1:221491/1‑151 (MQ=255)                                                                                                                                                 aaGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCTGGTGGTc   >  2:378848/1‑151 (MQ=255)                                                                                                                                                  aGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCTGGTGGTcc  >  2:616878/1‑151 (MQ=255)                                                                                                                                                     |                                                                                                                                                    GCACGCATCGCCTGAGCGCGTGGCTGCGTCAGTGTGCCAACGTTAATCAACAAGGCACTGGCGATAGCCGCAAACTGACTGGCCTCTTCGGTTTCGATAACCATCGCTGGCGATGCACCGAGCGCCAGCAAGGTATTGGCGGTAAAGGTTTGCACCACATCATTGGTCATGCAGTGCACAAGAGGGGAATGTTGGTGAAAAAGGTGTAACGCGTGCGCAGATTGCGCTGAACCCAGCAGGTCGACTTGCATAGTTTGCTCCTGCCATAACGTGAAGAAGCAATGACCTGGTGGTCC  >  NC_000913/2185051‑2185346

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑