Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,247,128	G→A	L469L (CTG→TTG)	lysP ←	lysine:H(+) symporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,247,128	0	G	A	97.8%	152.5 / NA	45	L469L (CTG→TTG)	lysP	lysine:H(+) symporter
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (18/26);  minor base T (1/0);  total (19/26)
Fisher's exact test for biased strand distribution p-value = 4.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTCAGGGAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAGCTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCAAAGTGATAATCAGACACAGAATGAATGC  >  NC_000913/2246999‑2247263                                                                                                                                  |                                                                                                                                        gTCAGGGAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCg                                                                                                                               >  2:711141/1‑140 (MQ=255)  tCAGGGAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGa                                                                                                                              <  2:623483/140‑1 (MQ=255)     gggAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAAcc                                                                                                                           <  2:385920/140‑1 (MQ=255)     gggAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAAcc                                                                                                                           <  1:504274/140‑1 (MQ=255)      ggAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCa                                                                                                                          <  1:68462/140‑1 (MQ=255)      ggAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCa                                                                                                                          >  2:546776/1‑140 (MQ=255)      ggAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCa                                                                                                                          >  1:507725/1‑140 (MQ=255)        aaaTGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCaaa                                                                                                                        <  2:534288/140‑1 (MQ=255)        aaaTGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCaaa                                                                                                                        <  1:546776/140‑1 (MQ=255)        aaaTGGAATTGAAAAAGACCTCGCGGTTGAGCGGGCTTACCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCaaa                                                                                                                        <  2:233514/140‑1 (MQ=255)                    aaaaGCCCTCTCGGTGGAGAGGACTTAGCAAGGAAGGCAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACa                                                                                                            <  1:283897/140‑1 (MQ=255)                                  ttGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAata                                                                                              <  1:711141/140‑1 (MQ=255)                                   tGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGaa                                                                                                              <  2:78948/123‑1 (MQ=255)                                   tGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGaa                                                                                                              >  1:78948/1‑123 (MQ=255)                                       agGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCATCTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGt                                                                                         >  1:680766/1‑140 (MQ=255)                                       agGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGt                                                                                         >  2:544415/1‑140 (MQ=255)                                       agGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGt                                                                                         >  2:176404/1‑140 (MQ=255)                                          gCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGc                                                                                      >  2:563591/1‑140 (MQ=255)                                          gCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAATTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGc                                                                                      >  1:477658/1‑140 (MQ=255)                                                   ggaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgcc                                                                             >  1:368922/1‑140 (MQ=255)                                                   ggaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgcc                                                                             >  1:465865/1‑140 (MQ=255)                                                    gaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgccg                                                                            <  1:544415/140‑1 (MQ=255)                                                    gaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgccg                                                                            <  1:176404/140‑1 (MQ=255)                                                    gaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgccg                                                                            >  2:480933/1‑140 (MQ=255)                                                    gaaggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTAcgccg                                                                            <  2:368922/140‑1 (MQ=255)                                                      aggGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACgccgcc                                                                          <  2:680766/140‑1 (MQ=255)                                                          aggaAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAg                                                                      <  1:480933/140‑1 (MQ=255)                                                           ggaAACTTATTTCTTTTCGTTCGGCGGGACCTTCATTACGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGt                                                                     <  1:350043/140‑1 (MQ=255)                                                                 ttATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAg                                                               <  1:60699/140‑1 (MQ=255)                                                                          aTCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCa                                                      >  2:185055/1‑140 (MQ=255)                                                                              ttCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGaa                                                  <  1:610616/140‑1 (MQ=255)                                                                                cTGCGGGAACTTCATTTTGCTGCAGCGTACGGAGTGAGTTCCTTTAATTAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACg                                                <  2:229962/140‑1 (MQ=255)                                                                                cTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAATTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACg                                                <  2:477658/140‑1 (MQ=255)                                                                                  gCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGATACGCCGACCCGGTGAATAGTATCTTTCAGGAACGCt                                              >  1:223254/1‑140 (MQ=255)                                                                                     ggAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTACTTTAATCAACTGGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCg                                           <  2:304083/140‑1 (MQ=255)                                                                                          ttCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGtt                                      <  1:563591/140‑1 (MQ=255)                                                                                             aTTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCg                                           >  2:42223/1‑132 (MQ=255)                                                                                             aTTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCg                                           <  1:42223/132‑1 (MQ=255)                                                                                                  gCTGTAGCGTACGAAGTCAGTTCCTTTAATCCACTTGTAGCCGAACCATATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCa                              <  2:223254/140‑1 (MQ=255)                                                                                                        gCGTACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCAAAGTGa                        <  1:185055/140‑1 (MQ=255)                                                                                                           tACGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGGCAATAGTAACTTACAGTAACGCTTCGTAGTTCTGGCCCAAAGTGATaa                     >  2:186982/1‑140 (MQ=255)                                                                                                             cGAAGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCAAAGTGATAATc                   <  2:465865/140‑1 (MQ=255)                                                                                                                aGTGAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCAAAGTGATAATCAGa                >  1:71860/1‑140 (MQ=255)                                                                                                                   gAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCa                              >  2:62079/1‑123 (MQ=255)                                                                                                                   gAGTTCCTTTAATCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCa                              <  1:62079/123‑1 (MQ=255)                                                                                                                              aTCAACTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTATGGGCCAAAGTGGTAATGAGACACAGAATGAATGc  >  2:190235/1‑140 (MQ=255)                                                                                                                                  |                                                                                                                                        GTCAGGGAAATGGAATTGAAAAAGCCCTCTCGGTTGAGAGGGCTTAGCAAGGAAGGGAGGAAACTTATTTCTTATCGTTCTGCGGGAACTTCATTTCGCTGTAGCGTACGAAGTGAGTTCCTTTAATCAGCTTGTAGCCGAACCAAATAATCAGGAACAGCGGGATACCAATATACGTTGCCGCTACGCCGCCCCAGTCAATAGTATCTTTCAGGAACGCTTCGTAGTTCTGGCCCAAAGTGATAATCAGACACAGAATGAATGC  >  NC_000913/2246999‑2247263

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑