Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	6,066,913	G→A	19.0%	A25A (GCC→GCT)	PP_5319 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	6,066,913	0	G	A	19.0%	43.8 / 3.9	21	A25A (GCC→GCT)	PP_5319	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (8/9);  new base A (2/2);  total (10/11)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCGACTTGCCACCCGCATCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCGGCCCTCTGTAGCCTAGT  >  NC_002947/6066786‑6067011                                                                                                                                |                                                                                                     tCGACTTGCCACCCGCATCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCa                                                                                              <  2:299548/136‑1 (MQ=255)   gACTTGCCACCCGCATCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGAGCCATCCAGc                                                                                            >  1:486425/1‑136 (MQ=255)   gACTTGCCACCCGCATCCTTGTCAAAGGTGTACAGCGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGCCAGCGCCAACGCAGTGAAAACAGCCATCCAGc                                                                                            >  1:489210/1‑136 (MQ=255)       tGCCACCCGCATCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAg                                                                                        >  1:194386/1‑136 (MQ=255)                  tCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCgtg                                                                             <  2:499964/136‑1 (MQ=255)                    cTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTc                                                                           <  2:19969/136‑1 (MQ=255)                                            gCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑gg‑gg                                                 >  1:40782/1‑136 (MQ=255)                                            gCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑gg‑gg                                                 >  1:43471/1‑136 (MQ=255)                                                   tGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAAt                                          >  1:302977/1‑136 (MQ=255)                                                   tGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATCGGATTCACCATTGTTTC‑GG‑GGGGGAAAt                                          >  1:260628/1‑136 (MQ=255)                                                         aCCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTc                                    >  2:64188/1‑136 (MQ=255)                                                          cccACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCg                                   <  2:460094/136‑1 (MQ=255)                                                                       cTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCaaa                      >  1:500175/1‑136 (MQ=255)                                                                         tctcCATTGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGATAAGGGCCATCCAGCTCAGCGTATGTCGTGTCTTTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGc                    <  1:364509/136‑1 (MQ=255)                                                                          ctcCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCg                   <  2:40782/136‑1 (MQ=255)                                                                          ctcCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCg                   <  2:43471/136‑1 (MQ=255)                                                                           tcgatgggatggTGGGCCTACGCCTGCCGGGGCAGCGCCTACGGAGTGATAAGAGCCATCCAGCTCAGGGTATGTCGTGTCTTTGGTTTCACCATTGTTTCGGG‑GGGGGATATGTGTTCGGATTGCCATCTAAGCg                   <  2:489210/133‑1 (MQ=255)                                                                           tcCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGAGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GGTGGGGGAAATGAGTTCGGATTGCCATCAAAGCg                   <  2:486425/136‑1 (MQ=255)                                                                               tggcatggTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCGGCCct              <  1:543983/136‑1 (MQ=255)                                                                                  catggTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCGGCCCTCTg           >  1:213307/1‑136 (MQ=255)                                                                                           ccAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATCGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCGGCCCTCTGTAGCCTAGt  <  2:260628/136‑1 (MQ=255)                                                                                                                                |                                                                                                     TCGACTTGCCACCCGCATCCTTGTCAAAGGTGTACAGGGTCATGCCGGCATGATCGACCCACATGCCATCCTTCTCCATGGCATGGTGGGCCAACGCCACCCCCGGCAGCGCCAACGCAGTGAAAAGGGCCATCCAGCTCAGCGTATGTCGTGTCATTGGATTCACCATTGTTTC‑GG‑GGGGGAAATGAGTTCGGATTGCCATCAAAGCGGCCCTCTGTAGCCTAGT  >  NC_002947/6066786‑6067011

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑