Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,163,371	0	C	T	42.4%	38.3 / 11.0	33	L38F (CTC→TTC)	thiK	thiamine kinase
Reads supporting (aligned to +/- strand):  ref base C (3/16);  new base T (14/0);  total (17/16)
Fisher's exact test for biased strand distribution p-value = 9.77e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTGCAGACGGGCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTG  >  NC_000913/1163226‑1163512                                                                                                                                                  |                                                                                                                                               gTGCAGACGGGCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTAACATCCCTTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCa                                                                                                                                             <  1:656503/149‑1 (MQ=255)   gCAGACGGGCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGa                                                                                                                                         <  2:390735/151‑1 (MQ=255)         gggCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCa                                                                                                                                   <  1:380202/151‑1 (MQ=255)          ggCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAg                                                                                                                                  <  1:329077/151‑1 (MQ=255)             gAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGTTTTTTCCTTTAACATCAgg                                                                                                                                 >  2:391757/1‑149 (MQ=255)                   aTCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCATTTaaaaacaagg                                                                                                                                >  1:699130/1‑136 (MQ=255)                     cTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGGTTTTCCTTGAAAATCATGGGCAGCGgtt                                                                                                                       >  1:158443/1‑151 (MQ=255)                                       cGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCa                                                                                                     <  1:720048/151‑1 (MQ=255)                                        gTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCTTTTAAAAACAGAGCCAGCGTTTttttgttggggcgccgccc                                                                                                    >  2:550149/1‑138 (MQ=255)                                            cGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCCTTTTAAATCAAGGCCCGCGGTTTTTTTTGTGTCAGCCGCACgcac                                                                                                >  1:325611/1‑148 (MQ=255)                                            cGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATc                                                                                                <  1:574640/151‑1 (MQ=255)                                            cGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGGTTTTTTATTTAACAACCCGGCCAGGGGGTTTTTTTGCGCCcgccgccc                                                                                                    >  2:111710/1‑145 (MQ=255)                                               agcaATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTGTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTg                                                                                             <  2:40920/151‑1 (MQ=255)                                                  aataatCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTTTTTTTACATCAAGGCCAGCCGTTTTTTTTGTGTCAGCCGCACCGTCCTCATg                                                                                          >  2:362689/1‑151 (MQ=255)                                                  aataatCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGAt                                                                                           <  2:323602/150‑1 (MQ=255)                                                     aatCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATgcg                                                                                        <  2:222176/150‑1 (MQ=255)                                                      atCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTCTTATTTAACATTCAGGCCAGCGGTTTTTTTTTCGTcgggcctccgcacc                                                                                               >  2:301022/1‑129 (MQ=255)                                                        cccATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTTATTTAAAAACAAGGCCCGCGGTTTTTTTTGTGTCAGCCGCCCGATCCCGATGcgccg‑c                                                                                   >  1:360610/1‑151 (MQ=255)                                                                 cgcgACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGCGGTTTCTCATTGAACATCAACGGCAGCGGTTTGTTTTGGGGCAGCCCACCGATCCCTATGcgccg‑ccg                                                                                 >  2:207646/1‑142 (MQ=255)                                                                    gacgaATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCCTTTTACATTAGGGCCCCCGTTTTTTTTTGGGTCAGCCGCCCGATCCTCGTGCGCCG‑CAGGcccccgt                                                                         >  1:102719/1‑144 (MQ=255)                                                                               gTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGt                                                              <  2:622318/149‑1 (MQ=255)                                                                                 cgcgCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATc                                                           <  2:334214/150‑1 (MQ=255)                                                                                   cgcTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCATTTTAAATCAAGTCCAGCGGTTTTTTGTGGGTTAGCCGCCCGATCCTCATGCGCCG‑CCGGCCGCGTTTTTGTGCCCGGATCggg                                                        >  1:260312/1‑151 (MQ=255)                                                                                             cGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTTCTTTAACAACAGGGCCAGCGGTTTTTTGTTTGTCAGGCGCCCGCTCCCGATGCGCCGCCGGTCCCCG‑TCTTTCGCCCGTAACGGGCttttt                                                  >  1:690904/1‑145 (MQ=255)                                                                                              gCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGATTTTTTATTTAAAATCAAGGACCGCGTTTTTTTGTGCGGCCGGCGCCCGATTCTTATGGGCCG‑CCGGCCGCCTGTTTGCGCCCGTATCCGGCttttt                                                  >  2:223672/1‑144 (MQ=255)                                                                                                    tcatcCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGGGGTTTTTCATTTTAAAACAAGGCCACCGGTTTTTTTTTGGTCCGCCGCCCGGTCCTTATGCGCCG‑CCGGCCCCCGTCTTTCGCCCGGATCGGGCTTTTTTCCAAATAccc                                       >  1:691155/1‑151 (MQ=255)                                                                                                             cACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCAtt                              <  1:86435/151‑1 (MQ=255)                                                                                                               cgacgTTTAATAGTGGGCTTAGTGGCGGGATTTTTCTCTTTGAGCATCAGGGCCAGCGGTTTGTTGTGCGTCAGCCTCACGGTCCTGATGCGCCG‑CAGTGCGCGTTCTTGCGCCAGTATCGTGCTTTATCACAACTACCCGCATGCAtt                              <  2:536217/149‑1 (MQ=255)                                                                                                                   gTTTAATAGTGGGCTTAGTGGCGGGAGTTTTTTCTTTTAAAATCCAGGCCCGCGGTTTGTTGTGGGGGCGCCGCCCGGACCTTGAGGGCCG‑CCGGCCCCGTTCCTGGGCCCGGATTGGGGGTTTTCATAACCACCCccatgcgatggcc                          >  1:421224/1‑142 (MQ=255)                                                                                                                             gggCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCAt               <  1:732306/150‑1 (MQ=255)                                                                                                                                     tGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATAtctc      >  1:115152/1‑151 (MQ=255)                                                                                                                                       gCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCg    <  1:61336/151‑1 (MQ=255)                                                                                                                                         gggAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTg  <  2:574298/151‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                               GTGCAGACGGGCGAAATTATCTGGTCAGGTAAAGGTGCCGTTTCGCAGCAATAATCCCATCACGCGCGACGAATTGCTGTCGCGCTTTTTCCCGCAGTATCATCCCGTCACGACGTTTAATAGTGGGCTTAGTGGCGGGAGTTTTCTCATTGAACATCAGGGCCAGCGTTTTGTTGTGCGTCAGCCGCACGATCCTGATGCGCCG‑CAGTCCGCGTTCTTGCGCCAGTATCGGGCTTTATCACAACTACCCGCATGCATTGCACCGAAGCCGCATTTATATCTCCGTG  >  NC_000913/1163226‑1163512

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑