Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,810,100	G→T	12.2%	M169I (ATG→ATT)	thrS →	threonine‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,810,100	0	G	T	12.2%	129.3 / 5.9	47	M169I (ATG→ATT)	thrS	threonine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base G (21/20);  new base T (4/2);  total (25/22)
Fisher's exact test for biased strand distribution p-value = 6.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAAAAGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAGCGCGTGT  >  NC_002947/2809954‑2810245                                                                                                                                                   |                                                                                                                                                   gAAAAGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATgg                                                                                                                                                   <  7:161512/148‑1 (MQ=255)  aaaaGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGc                                                                                                                                                 <  6:56949/149‑1 (MQ=255)    aaGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCt                                                                                                                                               <  8:7272/149‑1 (MQ=255)    aaGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCt                                                                                                                                               <  2:82475/149‑1 (MQ=255)           tgatgGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGtactac                                                                                                                                        <  1:320273/149‑1 (MQ=255)           tgatgGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGtactac                                                                                                                                        >  5:169896/1‑149 (MQ=255)                  gCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGTACAGGCCCATGGCCTGttcatcc                                                                                                                                       <  3:14841/143‑7 (MQ=255)                  gCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGTACAGGCCCATGGCCTGttcatcc                                                                                                                                       >  4:14841/1‑137 (MQ=255)                      aTTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACgaagaa                                                                                                                               <  8:52152/147‑1 (MQ=255)                       ttGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATAc                                                                                                                            <  4:136346/149‑1 (MQ=255)                          aaaaaGACTACGACGTGGTCAAGAAAATGACCACGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTc                                                                                                                         >  6:24814/1‑149 (MQ=255)                           aaaaGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACgaa                                                                                                                                  <  6:327425/139‑1 (MQ=255)                           aaaaGACTACGACGTGGTCAAGAAAATGACCCCGCGCGACGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACgaa                                                                                                                                  >  5:327425/1‑139 (MQ=255)                             aaGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGa                                                                                                                       >  5:97007/1‑148 (MQ=255)                                                   aaTGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGc                                                                                               <  6:97007/149‑1 (MQ=255)                                                   aaTGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGc                                                                                               <  5:24814/149‑1 (MQ=255)                                                           cgcgcgCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACAcc                                                                                       <  4:209647/149‑1 (MQ=255)                                                                gcCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCtt                                                                                  >  5:42948/1‑149 (MQ=255)                                                                    caGTCATCGATGTGGTCCAGGCCCGGGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGAGGAACAGGCCATGGGCCTGTACTACCACGCAGAATCCGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTc                                                                              <  8:20679/148‑1 (MQ=255)                                                                       tCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAg                                                                           <  6:169896/149‑1 (MQ=255)                                                                       tCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAg                                                                           >  2:17363/1‑149 (MQ=255)                                                                         aTCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGTCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCCCAAgg                                                                          >  1:99112/1‑148 (MQ=255)                                                                         aTCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGc                                                                                               <  4:262977/127‑1 (MQ=255)                                                                         aTCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGc                                                                                               >  3:262977/1‑127 (MQ=255)                                                                                        gCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTg                                                               <  5:275938/144‑1 (MQ=255)                                                                                        gCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTg                                                               >  6:275938/1‑144 (MQ=255)                                                                                                 gAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCgg                                                 >  7:264596/1‑149 (MQ=255)                                                                                                       tACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTa                                           >  8:333009/1‑149 (MQ=255)                                                                                                            gCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACtggc                                      <  7:333009/149‑1 (MQ=255)                                                                                                              tGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACtggcgt                                    >  2:183527/1‑149 (MQ=255)                                                                                                                cGTCTGGTCGAAGAGATGCCGGATGAACAGGCCATTGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACtggcgtgg                                  <  2:15410/149‑1 (MQ=255)                                                                                                                  tCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACtggcgtggc                                 >  3:272434/1‑148 (MQ=255)                                                                                                                      gTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGc                            >  6:78847/1‑149 (MQ=255)                                                                                                                                tGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGag                  <  8:262974/149‑1 (MQ=255)                                                                                                                                 gCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGag                  >  7:191549/1‑148 (MQ=255)                                                                                                                                   tggtagtaCAGGCCCATGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGagcag               >  5:337976/8‑149 (MQ=255)                                                                                                                                    ggATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAg                                                                           <  6:14601/88‑1 (MQ=255)                                                                                                                                    ggATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAg                                                                           >  5:14601/1‑88 (MQ=255)                                                                                                                                        gAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCtt            >  4:212716/1‑147 (MQ=255)                                                                                                                                         taCAGGCCCATGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCACGGTGCCGAACACCCGCTTCCGAAAGGCATTAAAGCTTACCAAGCTGTCCGGCGCCTAATGGCGTGGGGATGCCAAGAACGAGCAGCtt            >  1:283734/2‑147 (MQ=255)                                                                                                                                         taCAGGCCCATGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAg         >  8:190337/2‑149 (MQ=255)                                                                                                                                          aCAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAAc                     >  2:204153/1‑136 (MQ=255)                                                                                                                                          aCAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGCCGCCTACTGGCGTGGCGATGCCAAGAAc                     <  1:204153/136‑1 (MQ=255)                                                                                                                                              gCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAGCGCgt    >  2:148053/1‑149 (MQ=255)                                                                                                                                                cATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTc           >  7:180486/1‑140 (MQ=255)                                                                                                                                                cATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTc           <  8:180486/140‑1 (MQ=255)                                                                                                                                                cATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAGCGCgtgt  <  3:212716/149‑1 (MQ=255)                                                                                                                                                cATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAGCGCgtg   >  7:149446/1‑148 (MQ=255)                                                                                                                                                   |                                                                                                                                                   GAAAAGCGCATGATGGAGCTGATTGAAAAAGACTACGACGTGGTCAAGAAAATGACCCCGCGCGCCGAAGTCATCGATGTGTTCAAGGCCCGTGGCGAAGACTACAAGCTGCGTCTGGTCGAAGACATGCCGGATGAACAGGCCATGGGCCTGTACTACCACGAAGAATACGTCGACATGTGCCGTGGCCCGCAC‑GTGCCGAACACCCGCTTCCTCAAGGCATTCAAGCTGACCAAGCTGTCCGGCGCCTACTGGCGTGGCGATGCCAAGAACGAGCAGCTTCAGCGCGTGT  >  NC_002947/2809954‑2810245

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑