Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,682,940	C→T	8.1%	T51I (ACT→ATT)	PP_3249 →	putative oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,682,940	0	C	T	8.1%	138.3 / 2.1	49	T51I (ACT→ATT)	PP_3249	putative oxidoreductase
Reads supporting (aligned to +/- strand):  ref base C (24/21);  new base T (2/2);  total (26/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.21e-01

GCACGTCGTGAAGTCCTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATTCTCGGCCAGTTGCTGGAA  >  NC_002947/3682795‑3683088                                                                                                                                                  |                                                                                                                                                     gCACGTCGTGAAGTCCTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTc                                                                                                                                                   >  3:311845/1‑149 (MQ=255)     gtcgtGAAGTCCTACGCGCAGGTGGAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCggg                                                                                                                                                >  7:50050/1‑148 (MQ=255)           aaGTCATAAGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTACCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTc                                                                                                                                         >  3:332806/1‑149 (MQ=255)             gTCCTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGTGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCTGTACTTCGGGCAGTTTCGa                                                                                                                                       <  2:224262/149‑1 (MQ=255)              tCCTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAg                                                                                                                                      >  3:171110/1‑149 (MQ=255)                cTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGa                                                                                                                                       <  3:43238/146‑1 (MQ=255)                cTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCCGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGa                                                                                                                                       >  4:43238/1‑146 (MQ=255)                  aCGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAgg                                                                                                                                     >  3:51434/1‑146 (MQ=255)                       cAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAAc                                                                                                                             <  1:132216/149‑1 (MQ=255)                              aaCATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGc                                                                                                                      >  1:2996/1‑149 (MQ=255)                               aCATTGGGTTTGCTGGCCGCCGCCCTCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTGCCGTCCACCGGGTAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGcc                                                                                                                     <  8:50050/149‑1 (MQ=255)                                  ttGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCa                                                                                                                  <  8:164553/149‑1 (MQ=255)                                   tGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAg                                                                                                                                      <  8:281132/128‑1 (MQ=255)                                   tGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAg                                                                                                                                      >  7:281132/1‑128 (MQ=255)                                          gCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCtt                                                                                                           <  2:2996/148‑1 (MQ=255)                                           cTGGCCGCCGGCAGGCCTTGTCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTc                                                                                                          <  4:84589/148‑1 (MQ=255)                                              gccgccgccAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGc                                                                                                       <  4:171110/148‑1 (MQ=255)                                              gccgccgccAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGAGCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAg                                                                                                        <  4:22667/147‑1 (MQ=255)                                                    gccAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAg                                                                                                                                      <  8:225915/111‑1 (MQ=255)                                                    gccAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAg                                                                                                                                      >  7:225915/1‑111 (MQ=255)                                                         cccTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGc                                                                                           >  6:124839/1‑149 (MQ=255)                                                         cccTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTACGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTATTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGc                                                                                           >  8:78156/1‑149 (MQ=255)                                                         cccTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTACGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTATTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGc                                                                                           >  8:73201/1‑149 (MQ=255)                                                           cTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTACGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTATTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTc                                                                                         <  7:73201/149‑1 (MQ=255)                                                           cTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTACGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTATTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTc                                                                                         <  7:78156/149‑1 (MQ=255)                                                                 tGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCa                                                                                   >  5:335109/1‑149 (MQ=255)                                                                  gCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTg                                                                                            <  5:149913/139‑1 (MQ=255)                                                                  gCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTg                                                                                            >  6:149913/1‑139 (MQ=255)                                                                   cACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCaa                                                                                       <  8:232494/143‑1 (MQ=255)                                                                   cACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAgagatt                                                                                 >  7:232494/1‑144 (MQ=255)                                                                           cgcgCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAATACGGTGCTCAAGGCATTTTTCGAAg                                                                         >  1:337708/1‑149 (MQ=255)                                                                              gcCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAggcg                                                                      <  4:311845/149‑1 (MQ=255)                                                                                            ttgcGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAgg                                                                                     <  3:222756/120‑1 (MQ=255)                                                                                            ttgcGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAgg                                                                                     >  4:222756/1‑120 (MQ=255)                                                                                            ttgcGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATc                                                        >  5:139361/1‑149 (MQ=255)                                                                                            ttgcGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATc                                                        >  1:76664/1‑149 (MQ=255)                                                                                                gcgcAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGaca                                                    >  8:174087/1‑149 (MQ=255)                                                                                                            gTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAAc                                         >  7:256727/1‑148 (MQ=255)                                                                                                                aCCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACgg                                    >  3:275058/1‑149 (MQ=255)                                                                                                                  cGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACggtg                                  <  6:28044/149‑3 (MQ=255)                                                                                                                    gTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTCGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGgc                                <  4:51434/149‑1 (MQ=255)                                                                                                                         gCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGa                           <  6:139361/149‑1 (MQ=255)                                                                                                                           gTTGCCGGTCATCGGCGCCGCTACTTCGCGCAGTTTCGAGCTAGACAACGGGTCGCCCCAGTACCTTCAGCTCAAAACTGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACa                         <  4:332806/149‑1 (MQ=255)                                                                                                                            ttGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAg                        >  3:166280/1‑149 (MQ=255)                                                                                                                                  gTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATtct                  <  4:166280/149‑1 (MQ=255)                                                                                                                                   tGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATtctc                 <  4:275058/149‑1 (MQ=255)                                                                                                                                   tGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAAAGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATtctc                 >  5:40515/1‑149 (MQ=255)                                                                                                                                     aTCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATTCTCgg               >  1:353904/1‑149 (MQ=255)                                                                                                                                                 aCTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATTCTCGGCCAGTTGCTgg    >  5:53083/1‑148 (MQ=255)                                                                                                                                                  cTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATTCTCGGCCAGTTGCTGGaa  <  2:353904/149‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                     GCACGTCGTGAAGTCCTACGCGCAGGTGCAACATTGGGATTGCTGGCCGCCGCCAGCCCTTGGCTGCACGCTGCCGCGCCGGCGGGTTTGCTTGCGCGCAAAGTCCCGTCCACCGGTGAAGCGTTGCCGGTGATCGGTGCCGGTACTTCGGGCAGTTTCGAGGTAGAAAACGGTTCGCCCCAGTACCTTCAGCTCAAAACGGTGCTCAAGGCATTTTTCGAAGGCGGCGGCCGGGTGATCGACACCTCGCCCAACTACGGGGGCGCCGACAGCATTCTCGGCCAGTTGCTGGAA  >  NC_002947/3682795‑3683088

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: ‑