Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,402,354	A→T	9.7%	L19Q (CTG→CAG)	PP_2103 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,402,354	0	A	T	9.7%	121.1 / 3.7	41	L19Q (CTG→CAG)	PP_2103	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (19/18);  new base T (2/2);  total (21/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.19e-01

GATGCCCCACAGTGGCGCATGCTTGATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACACCGCCGCCTTCAGGCGCAC  >  NC_002947/2402212‑2402498                                                                                                                                                |                                                                                                                                                 gATGCCCCACAGTGGCGCATGCTTGATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCtt                                                                                                                                           <  1:668035/150‑1 (MQ=255)      cccACAGTGGCGCATGCTTGATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCCTGCGC‑AGGCGCAGCAGCGCCTTGCGCa                                                                                                                                      <  2:979764/150‑1 (MQ=255)               gcgcATGCTTGATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTcgcgcg                                                                                                                             >  1:1098240/1‑150 (MQ=255)                         gATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTcgcgc                                                                                                                              >  2:67341/1‑139 (MQ=255)                         gATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTcgcgc                                                                                                                              <  1:67341/139‑1 (MQ=255)                             cccAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGttt                                                                                                               >  2:138648/1‑150 (MQ=255)                             cccAGGCCTTAATGTAGCGCGCTGCCGATACTGCGCATTCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGttt                                                                                                               <  2:316341/150‑1 (MQ=255)                              ccAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTg                                                                                                              >  2:242759/1‑150 (MQ=255)                               cAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTgcg                                                                                                                                        >  2:811065/1‑123 (MQ=255)                               cAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTgcg                                                                                                                                        <  1:811065/123‑1 (MQ=255)                               cAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTgg                                                                                                             >  2:1045901/1‑150 (MQ=255)                               cAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCATGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTgg                                                                                                             <  1:990039/150‑1 (MQ=255)                                aGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGc                                                                                                            >  1:652830/1‑150 (MQ=255)                                           tAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAg                                                                                                 <  2:59649/150‑1 (MQ=255)                                           tAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAg                                                                                                 <  1:605123/150‑1 (MQ=255)                                                aGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGCAAGGCGCTGCTGCGCC‑TGCGCatg                                                                                                                                    >  2:843425/1‑108 (MQ=38)                                                aGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGCAAGGCGCTGCTGCGCC‑TGCGCatg                                                                                                                                    <  1:843425/110‑3 (MQ=38)                                                   tGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATgg                                                                                         <  1:138648/150‑1 (MQ=255)                                                       cATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAAc                                                                                     >  1:445557/1‑150 (MQ=255)                                                                 aCGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTccc                                                                           >  1:472287/1‑150 (MQ=255)                                                                   gcggcgCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTg                                                                         >  2:653977/1‑150 (MQ=255)                                                                           gCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGc                                                                 <  1:242759/150‑1 (MQ=255)                                                                             ggTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCaa                                                               >  2:811324/1‑150 (MQ=255)                                                                                  aaGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTtcg                                                          >  2:416429/1‑150 (MQ=255)                                                                                   aGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTtcgt                                                         >  2:962316/1‑150 (MQ=255)                                                                                    gCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTtcgtc                                                        <  1:1045901/150‑1 (MQ=255)                                                                                     cAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTcgcg                                                                                                                               >  1:885986/1‑78 (MQ=255)                                                                                     cAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTcgcg                                                                                                                               <  2:885986/78‑1 (MQ=255)                                                                                       aCTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAg                                                     <  2:759383/150‑1 (MQ=255)                                                                                        cTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAgg                                                    <  1:653977/150‑1 (MQ=255)                                                                                           aCCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTg                                                 >  1:417961/1‑150 (MQ=255)                                                                                                          gATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCgat                                  <  2:1098240/150‑1 (MQ=255)                                                                                                                        gCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAacac                    <  1:416429/150‑1 (MQ=255)                                                                                                                          aTTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACAccg                  >  1:411444/1‑150 (MQ=255)                                                                                                                            ttCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACAccgcc                <  1:319701/150‑1 (MQ=255)                                                                                                                             gaactGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACAccgccg               >  1:56145/5‑150 (MQ=255)                                                                                                                               cATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCACATCTGGCAGGCTCATGGTTACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACACCgccgcc             >  1:147749/1‑150 (MQ=255)                                                                                                                                aTGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCgatgat                               >  2:461723/1‑131 (MQ=255)                                                                                                                                aTGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCgatgat                               <  1:461723/131‑1 (MQ=255)                                                                                                                                 tGCGCAAGGCGCTGCTGCGCCTT‑CGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCgat                                  <  1:384963/127‑1 (MQ=255)                                                                                                                                 tGCGCAAGGCGCTGCTGCGCC‑TGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCgat                                  >  2:384963/1‑127 (MQ=255)                                                                                                                                           gcagcaGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACACCGCCGCCTTCAGGCGCAc  >  2:172453/1‑150 (MQ=255)                                                                                                                                                |                                                                                                                                                 GATGCCCCACAGTGGCGCATGCTTGATACCCAGGCCTTCATGTAGCGAGCTGCCCATACCGCGCACGCGGCGCAGCGGTTCAAGCAACTGACCGGACTCATGACGGATTTCCTGGCGGTGCATTTCCATGCGC‑AGGCGCAGCAGCGCCTTGCGCAGTTCGCGCGGGTTACGCGTGTTTGGCAGTTCTGGCAGGCTCATGGCAACAGGCGCTCCCTGTCCTTGGCAAGTTCGTCGAGGGTGGCGCCGAAGGGCGATGATTCGTCGAACACCGCCGCCTTCAGGCGCAC  >  NC_002947/2402212‑2402498

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑