Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,707,272	G→C	13.5%	intergenic (+48/+94)	PP_1501 → / ← PP_1502	hypothetical protein/OmpA family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,707,272	0	G	C	13.5%	102.7 / 8.2	37	intergenic (+48/+94)	PP_1501/PP_1502	hypothetical protein/OmpA family protein
Reads supporting (aligned to +/- strand):  ref base G (15/17);  new base C (2/3);  total (17/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01

TGTTCGACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCACCGGCTGGTTGTCGTTG  >  NC_002947/1707124‑1707417                                                                                                                                                     |                                                                                                                                                   tgTTCGACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCgcggg                                                                                                                                                   >  1:1016120/1‑150 (MQ=255)   ttCGACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCgcgggcg                                                                                                                                                 <  1:384242/150‑1 (MQ=255)    tCGACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCgcgggcgg                                                                                                                                                <  2:52286/150‑1 (MQ=255)      gACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGgcggcg                                                                                                                                              >  1:556005/1‑150 (MQ=255)         acCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTc                                                                                                                                           <  2:385369/150‑1 (MQ=255)         acCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCCCGCGCGGCGCTc                                                                                                                                           <  1:713812/150‑1 (MQ=255)           ccAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGa                                                                                                                                         <  1:245025/150‑1 (MQ=255)            cagcagAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGAt                                                                                                                                        >  2:678550/1‑150 (MQ=255)                                 gTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGAtct                                                                                                                                      >  1:150536/1‑131 (MQ=255)                                 gTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGAtct                                                                                                                                      <  2:150536/131‑1 (MQ=255)                                    cTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCg                                                                                                                <  1:906054/150‑1 (MQ=255)                                     ttgtggACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCgcgggcgg                                                                                                                                                >  2:419404/3‑117 (MQ=255)                                     ttgtggACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCgcgggcgg                                                                                                                                                <  1:419404/115‑1 (MQ=255)                                             aaCCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACaaa                                                                                                       >  1:861032/1‑150 (MQ=255)                                                cGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATc                                                                                                                 <  1:1173220/137‑1 (MQ=255)                                                cGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATc                                                                                                                 >  2:1173220/1‑137 (MQ=255)                                                     gcgcgcGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAggcg                                                                                                                              >  1:614270/1‑119 (MQ=255)                                                     gcgcgcGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAggcg                                                                                                                              <  2:614270/119‑1 (MQ=255)                                                           ggTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑t                                                                                        >  2:1153087/1‑150 (MQ=255)                                                                             ggAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTcc                                                                      <  1:178611/150‑1 (MQ=255)                                                                                  cacCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCa                                                                 <  2:163007/150‑1 (MQ=255)                                                                                   acCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGca                                                                                                                           >  2:923476/1‑92 (MQ=255)                                                                                   acCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGca                                                                                                                           <  1:923476/92‑1 (MQ=255)                                                                                                  gTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAgc                                                 >  2:774642/1‑150 (MQ=255)                                                                                                     aGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCt                                              <  2:1016120/150‑1 (MQ=255)                                                                                                            ggCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTc                                                                       <  1:832326/118‑1 (MQ=255)                                                                                                            ggCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTc                                                                       >  2:832326/1‑118 (MQ=255)                                                                                                             gcgcAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCGATCGA‑CGCGGGGCtt                                                                          <  2:662772/114‑1 (MQ=255)                                                                                                             gcgcAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCGATCGA‑CGCGGGGCtt                                                                          >  1:662772/1‑114 (MQ=255)                                                                                                             gcgcAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTgg                                      >  1:1096435/1‑150 (MQ=255)                                                                                                                 agcaTTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCa                                  >  1:1201099/1‑150 (MQ=255)                                                                                                                      ttttGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAg                             <  2:556005/150‑1 (MQ=255)                                                                                                                                 gcgAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCAc                  >  1:681020/1‑150 (MQ=255)                                                                                                                                     gaTCGAGCGCCGCCCGCGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTa                                                             >  2:423035/1‑103 (MQ=255)                                                                                                                                     gaTCGAGCGCCGCCCGCGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTa                                                             <  1:423035/103‑1 (MQ=255)                                                                                                                                       tCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCACCGGCTg            <  1:684111/150‑1 (MQ=255)                                                                                                                                       tCGAGCGCCGCCCGCGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGc                                                                            <  1:82735/86‑1 (MQ=255)                                                                                                                                       tCGAGCGCCGCCCGCGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCCAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGc                                                                            >  2:82735/1‑86 (MQ=37)                                                                                                                                         gAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTcc                                                                      <  1:1126117/90‑1 (MQ=255)                                                                                                                                         gAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTcc                                                                      >  2:1126117/1‑90 (MQ=255)                                                                                                                                                gcgcgGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCACCGGCTGGTTGTCGtt   <  1:774642/150‑1 (MQ=255)                                                                                                                                                 cgcgGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCACCGGCTGGTTGTCGTTg  <  1:678550/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   TGTTCGACACCCAGCAGAAAGGCCTGACCGGCGTGCTGGTGGACAACCGCAAGCGCGCGGTGCGCTGCATGGGCGAGGAAACACCGCGGCAGGTGCAGTGAGGTTTCGGCGCAGCATTTTTGGCGCCCGCGAGATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGGCACAACATTATCGGCGAACAAAGAAAAGCCCCGCG‑TCGATCGCGGGGCTTGTCCTTTCAGCTAGCCAGCCTTAGCGCTGAACCTGGCTCACCGAGCGTGGTGCCACCGGCTGGTTGTCGTTG  >  NC_002947/1707124‑1707417

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑