Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,033,927	G→A	F416F (TTC→TTT)	lysS ←	lysine‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,033,927	0	G	A	97.1%	106.9 / NA	34	F416F (TTC→TTT)	lysS	lysine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (15/18);  minor base C (1/0);  total (16/18)
Fisher's exact test for biased strand distribution p-value = 4.71e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01

ACGTCGCGGATGGTATGGCTGTTGGTGAACAGCATTACCATACGGTCGATACCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGATCCGCCATGT  >  NC_000913/3033691‑3034153                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                   aCGTCGCGGATGGTATGGCTGTTGGTGAACAGCATTACCATACGGTCGATACCAATTCCCAGTCCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGGAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTc                                                                                                                                                                                                                      <  1:110051/251‑1 (MQ=255)       cgGATGGTCTGGCTCTTGGTGACCCGGATTACCCTACGGTCGATACCAATTCCCCGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCTGTGACGTAATCGTCATCGAAGAACATCACTTCGTCGTCACCGGCGGGTTTCGCGACAACAGGATCACAGAAAG‑GTGGCGCCAGATCTTCCGCGGCATTCAACTCGCTAAAGCCGTCACCAGTTTCACGAACACCAATGAAAAACTCAAAgggtactgtaat                                                                                                                                                                                                                >  2:108263/1‑240 (MQ=255)          aTGGTATGGCTGTTGGTGAACAGCATTCCCATACGGTCGATACCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCTTTACCGATTTAACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTc                                                                                                                                                                                                             <  1:186789/251‑1 (MQ=255)                              cAGCATTACCATACGGTCGATACCAATTCCCAGACTTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacgac                                                                                                                                                                                         >  1:66645/1‑251 (MQ=255)                                 cATTACCATACGGTCGATACCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAcgcc                                                                                                                                                                                      >  2:32909/1‑250 (MQ=255)                                           cGGTCGATCCCAATTCCCAGACCTGCTCTCGGCGGTAAGCCATGTTCCCGTGCGGTGCCGTCATCTTCATCGTAGAGAATCGCTTCGTCGTCACCTGCGTCTTTAGCGGCAACCTGATC‑CAGGAAACGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGCAAACCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGACAGCgg                                                                                                                                                                               >  2:118819/1‑248 (MQ=255)                                                 aTACCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGACGTTACGACGCGCCAGCGGAGAAACTTc                                                                                                                                                                      >  1:218315/1‑251 (MQ=255)                                                   aCCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTg                                                                                                                                                                    <  1:130833/251‑1 (MQ=255)                                                       aTTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGAACTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCgg                                                                                                                                                                <  2:172862/251‑1 (MQ=255)                                                          cccAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGata                                                                                                                                                             <  1:16761/251‑1 (MQ=255)                                                                           cggTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTGCTGCCGGATATTCAGTAAGGAAGGTCg                                                                                                                                            <  1:88883/251‑1 (MQ=255)                                                                           cggTAAGCAATGTTCCACTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGACGGTCg                                                                                                                                            >  2:235288/1‑251 (MQ=255)                                                                               aaGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTg                                                                                                                                        <  2:199028/251‑1 (MQ=255)                                                                                            gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCt                                                                                                                           >  1:36255/1‑251 (MQ=255)                                                                                                           cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCg                                                                                                            >  2:187446/1‑251 (MQ=255)                                                                                                             tCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCActtctt                                                                                                              <  2:80212/247‑1 (MQ=255)                                                                                                               aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                                                                                                           >  1:220219/1‑248 (MQ=255)                                                                                                                        cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGGCGGCTGAAGCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTaa                                                                                               <  2:90787/251‑1 (MQ=255)                                                                                                                                  tcgtcACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc                                                                                     >  1:115855/1‑251 (MQ=255)                                                                                                                                                              gATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATg                                                         >  2:31754/1‑251 (MQ=255)                                                                                                                                                                 c‑cAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGcc                                                       <  1:136668/250‑1 (MQ=255)                                                                                                                                                                                 ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGACTCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAAtt                                       >  1:36434/1‑251 (MQ=255)                                                                                                                                                                                         tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATGTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCGGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGTCCCAGACCCCAGTTCTTCGCAACGTGGATGCCGATAGATTCAGCAATTGCttt                                  <  1:12176/248‑1 (MQ=255)                                                                                                                                                                                               tCATTCCGCTCCCTAACGCCGTTACCCATTTCACCACCACCAATGAACAACTCAAAGCGCTCTGTGATCTCCGGCTTACAGTCGTTCCGACGCGCCAGCGGAGACACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCCGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGCTTCAGCAATTGCTTTCGCAGAGTc                         >  2:27928/1‑251 (MQ=255)                                                                                                                                                                                               tCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTc                         >  1:190543/1‑251 (MQ=255)                                                                                                                                                                                                   tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGaa                      <  1:93953/250‑1 (MQ=255)                                                                                                                                                                                                     aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTTGAAGtt                   >  2:164990/1‑251 (MQ=255)                                                                                                                                                                                                     aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGtg                   <  2:86120/251‑2 (MQ=255)                                                                                                                                                                                                          gCTAAAGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTACGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGCTCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGCGTCGAAGTTggcc               >  2:219027/1‑247 (MQ=255)                                                                                                                                                                                                              aaGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGATc          <  1:235066/251‑1 (MQ=255)                                                                                                                                                                                                              aaGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGGCGAATTTGTCCAGATc          <  2:94440/251‑1 (MQ=255)                                                                                                                                                                                                               aGCCGTTACCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGATcc         <  1:116483/251‑1 (MQ=255)                                                                                                                                                                                                                      aCCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGATCCGCCATGt  <  1:6815/251‑1 (MQ=255)                                                                                                                                                                                                                      aCCGATTTCACGACCACCAATGAAAAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGAGCCGCCATGt  <  1:55908/251‑1 (MQ=255)                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                   ACGTCGCGGATGGTATGGCTGTTGGTGAACAGCATTACCATACGGTCGATACCAATTCCCAGACCTGCTGTCGGCGGTAAGCCATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATC‑CAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCAGACCCCAGCTCTTCTCAACGTGGATGCCGATAGATTCAGCAATTGCTTTCGCAGAGTCGAAGTTGTCCAGATCCGCCATGT  >  NC_000913/3033691‑3034153

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑