Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	328,791	0	A	G	57.7%	4.4 / 24.5	26	S182P (TCC→CCC)	betI	choline‑inducible betIBA‑betT divergent operon transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (4/7);  new base G (15/0);  total (19/7)
Fisher's exact test for biased strand distribution p-value = 5.02e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.60e-03

TTGGCCGGGTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGGCAATTCGCGACGAAACTCGCTCACCAGATTCGAC  >  NC_000913/328642‑328933                                                                                                                                                       |                                                                                                                                                 ttGGCCGGGTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGaa                                                                                                                                                 <  1:137643/151‑1 (MQ=255) ttGGCCGGGTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGAGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGa                                                                                                                                                  <  2:246926/150‑1 (MQ=255)    gCCGGGTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAt‑t                                                                                                                                              <  1:448217/150‑1 (MQ=255)        ggTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGGAT‑TAgcg                                                                                                                                          >  2:303501/1‑150 (MQ=255)        ggTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCC‑GGGaggtaatgg                                                                                                                                          >  1:370460/1‑143 (MQ=255)               ggTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCA‑GGGGAT‑AAACGg‑gggggtt                                                                                                                                 >  1:393926/1‑147 (MQ=255)                gTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAA‑TAGCGC‑gggggttt                                                                                                                                >  1:561873/1‑146 (MQ=255)                  ctcGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATc                                                                                                                              <  1:441316/151‑1 (MQ=255)                                              gTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCC‑GGGGAT‑TAGCGC‑GGGGGTTTTCCAGCGGGTTGCCGCTCCCAGCcccgcg                                                                                                   >  1:295890/1‑150 (MQ=255)                                                 taACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGc                                                                                               <  1:26259/151‑1 (MQ=255)                                                      accaTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGGAA‑TTGCGC‑GGGGGTTTTTCAGCGGTGTTGCGCCCCGCGCCGCGCgccgccccca                                                                                          >  1:417656/1‑147 (MQ=255)                                                      accaTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATaa                                                                                          <  1:34920/151‑1 (MQ=255)                                                       ccaTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCAGGGGAATATAGCG‑‑GGGTTTTTTCCACCGGTTTTCC‑CCCCCAGCCGCGCgccgcccaaaa                                                                                         >  2:366395/1‑146 (MQ=255)                                                         aTGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATcc                                                                                       <  2:24938/151‑1 (MQ=255)                                                          tGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGGC‑GGGGAT‑TAGCGG‑GGGGTTTTTTTCCCGGGTTGCCGCCCCCAGCCccgcgcgggcccaaatc                                                                                       >  1:183770/1‑139 (MQ=255)                                                             atataAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCG‑GGGGAT‑TAGTGG‑GGGGTTTTTTCAACGGGTTGTCGCCCCGAGCCGCGCGCAGCCCTAATccacca                                                                                   >  1:245014/1‑151 (MQ=255)                                                             atataAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGGAT‑TAGCGC‑GGGGTTTTTCCAGCGGGTTGCCGCTCAGAGCCGCGCGCCGCCCTAATCCatca                                                                                   >  2:156961/1‑151 (MQ=255)                                                             atataAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGGA‑GGGGAA‑TTGGGC‑GGGGGTTTTTCCCCGGGTTGCCGCTCAGAGGCGCGCGCCGCCCAAAACCatc                                                                                    >  2:51444/1‑150 (MQ=255)                                                                     ctgctgTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAgcgc                                                                           <  1:133340/151‑1 (MQ=255)                                                                          gTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGGAT‑TAGGGC‑GGGGTTTTTTCAGCGGGTTTTCGCTCCGAGCCGCGCGGAGCCCTAATACATCAATAAACGCGGcc                                                                       >  2:139511/1‑150 (MQ=255)                                                                          gTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGGAA‑TAGCGCGGGGGTTTTTCCA‑CGGGTTGTCGCCCCGAGCCCCGCGCAGGCCCAATCCATCAATCAGCgccgcc                                                                       >  1:452455/1‑150 (MQ=255)                                                                          gTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCA‑GGGGAA‑TAGCGG‑GGGGTTTTTTCAGCGGGTTGCCGCCCCGAGCCCCCCGCAGCCCCAATACATCCAACAGCGCGGcc                                                                       >  1:578822/1‑150 (MQ=255)                                                                                     cGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCA‑GGGGAA‑TAGCGG‑GGGGGTTTTTCAGCGGGTTGCCGCCCCGAGCCCCGCGCGGCCCCAAACCATCAAACAACGcggcccggccccggcc                                                            >  1:274856/1‑144 (MQ=255)                                                                                            tCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGGCC‑GGGGAT‑TAACGC‑GGGGTTTTTTCAACGGGTTTTCGCCCCCAGCCGCGCGCGGCCCTAATTCATCAATCAGCGGGGCCCGGCCGGCGcccccctc                                                      >  2:148404/1‑144 (MQ=255)                                                                                                                 gTGGGTAGATGCTGAGTGATAAAGTGGCGGGGGA‑GGGGAA‑TAGCGG‑GGGGTTTTTTCAGGGGGTTGGCGCCCCGAGACGCCCGCCGCCCCAAAACCACCATCAACGCGGCCCGGCCGGAGGCCCCCCCCCCTGCCCGTTTCCGCGGccaat                               >  1:117180/1‑147 (MQ=255)                                                                                                                   gggTAGATGCTGAGTGATAAAGTGGCGGGGCA‑GGGGAT‑TAGCGC‑GGGGTTTTTTCCGCGGGTTTGCGCTCCGAGGCGCGGGCGGGCCTAATTCATCAATCAGAGCGGCCCGGCCGGAGCCCGCCTCCCGTGGCCGTTTGCGCGGGAATTc                              >  1:517610/1‑150 (MQ=255)                                                                                                                    ggTAGATGCTGAGTGATAAAGTGGCGGGGCA‑GGGAAT‑TAGAGC‑GGGGGTTATCCAGCGGGTTGCCGCTCCGTGCCGCGGGCGGGCCTAATCCCACCAAAAGGGTGGCCCGGGCCCAGCCCCCCTCCCGTGCCTGGTCGCGCCGCGAATcg                             >  1:290310/1‑150 (MQ=255)                                                                                                                                              ggTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGCGACTGTTCGCGCGGCAATTCGCGACGAAACTCGCTCACCCGCTTCGa   >  1:303170/1‑150 (MQ=255)                                                                                                                                               gTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGGCAATTCGCGACGAAACTCGCTCACCAGATTCGAc  <  2:100300/150‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                                 TTGGCCGGGTTAATGGTCTCGAAGGTGCGACCGCTGGTGGCGGAGGTATAACCACCATGTATATAAAGCTGCTGTTCTGCCATTCGGGACATCACGTCTCCTCGGTTAATCGGTGGGTAGATGCTGAGTGATAAAGTGGCGGGTCA‑GGGAAT‑TAGCGC‑GGGTTTTATCCAGCGGTTTGCCGCTCAGAGCCGCGCGCAGCCATAATCCATCAATCAGCGCGGCCAGGCCGTAGCCCGCTTCCTGTGCCTGTTCGCGCGGCAATTCGCGACGAAACTCGCTCACCAGATTCGAC  >  NC_000913/328642‑328933

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑