Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,503,790	A→G	13.6%	intergenic (+39/‑59)	xanP → / → tusD	xanthine permease/sulfur transfer protein complex subunit TusD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,503,790	0	A	G	13.6%	99.5 / 9.0	44	intergenic (+39/‑59)	xanP/tusD	xanthine permease/sulfur transfer protein complex subunit TusD
Reads supporting (aligned to +/- strand):  ref base A (16/22);  new base G (4/2);  total (20/24)
Fisher's exact test for biased strand distribution p-value = 3.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.10e-02

GCACATGCCGGCGGCGATTCGCAATGTGCTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTGGCCGGCGG  >  NC_002947/4503643‑4503937                                                                                                                                                    |                                                                                                                                                      tctcaTGCCGGCGGCGATTCTCAAGGTGCTGGATGCGGGGGTGGCTTCCGGGGGGTTTTGTGCGCTGGTGCTGATCTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGcac                                                                                                                                                      <  4:60014/146‑1 (MQ=255)   acaTGCCGGCGGCGATTCGCAATGTGCTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGcac                                                                                                                                                      >  6:398643/1‑147 (MQ=255)        ccGGCGGCGAGTCGCAATGTGCTGGAGGCGGGTGTTGCTACCGGGGTGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGATGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAgcgg                                                                                                                                                <  4:238959/148‑1 (MQ=255)           gcggcgATTCGCAATGTGCTGGAGGCGGGTGGGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGTGCAAgcgggcgc                                                                                                                                            <  7:388297/149‑1 (MQ=255)                     gCAATGTGCTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCttttt                                                                                                                                   <  5:176211/148‑1 (MQ=255)                      cAATGTGCTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCCCGTGGACAAGCGGGGGGGGGGttttttt                                                                                                                                 >  5:39544/1‑148 (MQ=255)                       actgtgCTGGAGTCGGGGGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGc                                                                                                                                <  1:371299/147‑1 (MQ=255)                             cTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTAt                                                                                                                           >  7:283372/1‑148 (MQ=255)                              tGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGATTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCa                                                                                                                         <  4:6435/149‑1 (MQ=255)                               ggtgtggggTGTGGCTACGGGGGGTTTTTTTGCGGTGTTGCTGAACTTTTTTTTGCCGGTGGTAAAGTATCTGGTTTTAACTTTTAGACTGAATTATATTAGCCCGCGCCCGCTTGAACACGGGGGGGCGGGCTTTTTTGCTTTATCAt                                                                                                                        <  8:132670/143‑1 (MQ=255)                                 aGTCGGGTTTGTCTACCGGGGGGATTTGTGCGCTTGTGCTGAAGTGGTTCTTGCCGGAGGGCAAGGAGCAGTCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGATTGCACAAGCTGTCGCTGGCTTTTTTGCTTTATCATg                                                                                                                       <  8:232520/148‑1 (MQ=255)                                      ggTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGTGCGCGGGCTTTTTTTCTTTATAATTTCAcc                                                                                                                  >  4:110593/1‑148 (MQ=255)                                             cTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCttt                                                                                                          <  3:331696/149‑1 (MQ=255)                                                ccGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTg                                                                                                         <  8:337797/147‑1 (MQ=255)                                                ccGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCa                                                                                                       >  3:298687/1‑149 (MQ=255)                                                           tgtgCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGcc                                                                                             <  5:398643/148‑1 (MQ=255)                                                                    gTGCTTAACTGGTTCTTGACGGATGGCAAGGATCAGGCTTGAACCTTGATAATGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTc                                                                                    <  3:110593/148‑1 (MQ=255)                                                                         gAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATc                                                                              >  5:394709/1‑149 (MQ=255)                                                                            cTGGTTCTTGCCGGAGGGCAAGGAGCAGTCTTGAACGTTGATACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTg                                                                                                         <  1:24395/119‑1 (MQ=255)                                                                            cTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCCCTTGCACAAGCCGGCGCCGGCTTTTTTGCTTTATCAAGGCACCATAACTTTg                                                                                                         >  2:24395/1‑119 (MQ=255)                                                                               gTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGgtg                                                                      >  2:98023/1‑149 (MQ=255)                                                                                ttCTTGCCGGAGGGCAAGGAGCAGGCTTTAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATcg‑‑cg                                                                         <  5:50963/145‑1 (MQ=255)                                                                                  cTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTtc                                                                   >  7:301508/1‑149 (MQ=255)                                                                                   ttGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGtt                                                                    >  4:304149/1‑147 (MQ=255)                                                                                   ttGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGtt                                                                    <  3:304149/147‑1 (MQ=255)                                                                                        ggAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCg                                                             <  8:283372/149‑1 (MQ=255)                                                                                         gAGTGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCGCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCgg                                                            <  7:300890/149‑1 (MQ=255)                                                                                         gAGGGCAAGGAGCAGGCTTGAACCTTGAGCCTGAATGACAGTAGCCCGCGCCCGCGTGCACCACCGCGCGCGGGCGTTTTTGCTTTAACCTGGACCCATTACTTTGCAAGAGTTAGCCAAGAAATTAGCGATCG‑‑AGTTGGTAGCCCCgg                                                            >  6:102319/1‑149 (MQ=255)                                                                                                 ggAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTAGCTATCG‑‑CGGTGTTCTCCCCGGCCCATgtg                                                    >  2:121891/1‑147 (MQ=255)                                                                                                      aGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCT‑CCCGGCCCATGCGCCctct                                              <  4:298687/149‑1 (MQ=255)                                                                                                          ttGAACCTTGAGACTGAATGAGAGTAGCCCGCCCCCCCATGCACAAGCGGGCGCGGGCTTTTTTGCATTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATAG‑‑AGGTGTTCTCCCCGGCCCATGCGCCCACATcg                                           >  6:180514/1‑149 (MQ=255)                                                                                                            gAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTcg                                           <  1:98023/147‑1 (MQ=255)                                                                                                            gAACCTTGAGACGTAATGAGCGTCGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTcgc                                          <  5:102319/148‑1 (MQ=255)                                                                                                                 ttGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGAcgcg                                    >  1:303408/1‑149 (MQ=255)                                                                                                                   gagaCTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGAcgcg                                    <  5:180514/147‑1 (MQ=255)                                                                                                                               gagTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGcc                      <  6:394709/149‑1 (MQ=255)                                                                                                                                agTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTTTCATGGCACCATTCCTTTGCATGAGTTTGCCATGAAATTAGCTATAG‑‑CGGTGTTGTCCCCCGCCCAAGCGCCCGCTTAGCGACGCGCCCGGCGCGTAGCCg                     >  8:120261/1‑149 (MQ=255)                                                                                                                                     cccgcgcccgcTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCT‑‑CGGTGTTCTCCCCGGCCCATGCCCCCTCTTCGCCACGCGCCCTGCGCTTCGCCGAGCCg                >  6:127225/1‑149 (MQ=255)                                                                                                                                      ccgcgcccgcTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCgg               >  2:76431/1‑149 (MQ=255)                                                                                                                                       cgcgcccgcTTGTGCAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGt              >  5:90807/1‑149 (MQ=255)                                                                                                                                       cgcgcccgcTTGTGCAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGt              >  2:259999/1‑149 (MQ=255)                                                                                                                                        gcgcccgcTTGTGCAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTg             >  4:117391/1‑149 (MQ=255)                                                                                                                                        gcgcccgcTTGTGCAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCAGAGGCGGTg             >  7:263324/1‑149 (MQ=255)                                                                                                                                           cccgcTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTg          <  7:120261/149‑1 (MQ=255)                                                                                                                                             cgcTTGTGCAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTGGc        <  6:90807/149‑1 (MQ=255)                                                                                                                                             cgcTTGCACAAGCGGGCGCGGGGTTTTTTTCTTTATCAAGGCACCATTCCTTTTCATGAGTTATCCATGAAAATCGCTATCGCCCTGTGTTCTCCCCGGCCCATGTGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTg          <  1:121891/149‑1 (MQ=255)                                                                                                                                                   cacaAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTGGCcggcgg  <  2:303408/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                      GCACATGCCGGCGGCGATTCGCAATGTGCTGGAGTCGGGTGTGGCTACCGGGGGGATTTGTGCGCTGGTGCTGAACTGGTTCTTGCCGGAGGGCAAGGAGCAGGCTTGAACCTTGAGACTGAATGAGAGTAGCCCGCGCCCGCTTGCACAAGCGGGCGCGGGCTTTTTTGCTTTATCATGGCACCATTCCTTTGCATGAGTTAGCCATGAAATTCGCTATCG‑‑CGGTGTTCTCCCCGGCCCATGCGCCCTCTTCGCGACGCGCCCTGCGCTTCGCCGAGGCGGTGCTGGCCGGCGG  >  NC_002947/4503643‑4503937

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑