Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	1,389,957	C→G	10.4%	P25A (CCG→GCG)	PP_1212 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,389,957	0	C	G	10.4%	137.7 / 4.9	46	P25A (CCG→GCG)	PP_1212	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (24/17);  new base G (2/3);  total (26/20)
Fisher's exact test for biased strand distribution p-value = 6.40e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTGCTAACCATATATAATCCCGCTTTTTGCTGCCCCCCGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGGCGGCGACAAGGCCGACTGA  >  NC_002947/1389814‑1390106                                                                                                                                                |                                                                                                                                                      ttgctAACCATATATAATCCCGCTTTTTGCTGCCCCCCGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGa                                                                                                                                                 >  1:746245/1‑150 (MQ=255)         cctctataATCCCCAATTCTGCTGCCCCCCGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTCCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGc                                                                                                                                         >  2:565680/5‑150 (MQ=255)          atatatAATCCCGCTTTTTGCTGCCCCCCGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCTCTGCTCTGATCGATTGcc                                                                                                                                        <  2:897631/150‑1 (MQ=255)                                  cccccGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGAt                                                                                                                                            <  2:189248/122‑1 (MQ=255)                                  cccccGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGAt                                                                                                                                            >  1:189248/1‑122 (MQ=255)                                       ggCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGGCGCGGCGCTGATcttc                                                                                                                                            <  2:519586/117‑4 (MQ=255)                                       ggCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGGCGCGGCGCTGATcttc                                                                                                                                            >  1:519586/1‑114 (MQ=255)                                             cagcGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGctgctg                                                                                                     >  1:1096543/1‑150 (MQ=255)                                              agcGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCa                                                                                                                              >  1:178209/1‑124 (MQ=255)                                              agcGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCa                                                                                                                              <  2:178209/124‑1 (MQ=255)                                                       gTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATc                                                                                                                                               <  2:736443/98‑1 (MQ=255)                                                       gTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATc                                                                                                                                               >  1:736443/1‑98 (MQ=255)                                                             gagagaCACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCgg                                                                                                                      <  1:398492/117‑1 (MQ=255)                                                             gagagaCACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCgg                                                                                                                      >  2:398492/1‑117 (MQ=255)                                                             gagagaCACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTc                                                                                     >  1:899131/1‑150 (MQ=255)                                                               gagaCACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGc                                                                                   <  2:899131/150‑1 (MQ=255)                                                                     cccATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGc                                                                             <  2:977218/150‑1 (MQ=255)                                                                      ccATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAg                                                                              <  1:593482/148‑1 (MQ=255)                                                                      ccATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAg                                                                              >  2:593482/1‑148 (MQ=255)                                                                      ccATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCg                                                                            <  2:486099/150‑1 (MQ=255)                                                                      ccATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCg                                                                            >  1:486099/1‑150 (MQ=255)                                                                       cATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCgg                                                                           <  2:1096543/150‑1 (MQ=255)                                                                            cccTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGaaaaa                                                                                                            >  2:1059602/1‑112 (MQ=255)                                                                            cccTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGaaaaa                                                                                                            <  1:1059602/112‑1 (MQ=255)                                                                                ttATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTg                                                                  <  2:746245/150‑1 (MQ=255)                                                                                   tGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCCCCGCTGATAGATTCCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTa                                                               >  1:450160/1‑150 (MQ=255)                                                                                         tCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAAc                                                         >  1:567676/1‑150 (MQ=255)                                                                                            aTGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGa                                                      >  1:312029/1‑150 (MQ=255)                                                                                                  gTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCa                                                                                            <  1:302149/106‑1 (MQ=255)                                                                                                  gTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCa                                                                                            >  2:302149/1‑106 (MQ=255)                                                                                                     cTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACt                                                                                                                  <  1:1059625/81‑1 (MQ=255)                                                                                                     cTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACt                                                                                                                  >  2:1059625/1‑81 (MQ=255)                                                                                                       gCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCg                                           <  2:642769/150‑1 (MQ=255)                                                                                                              ccGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACtt                                                   <  2:1051896/135‑1 (MQ=255)                                                                                                              ccGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACtt                                                   >  1:1051896/1‑135 (MQ=255)                                                                                                                 cATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGaaaaa                                 >  1:726267/1‑150 (MQ=255)                                                                                                                           ccgcAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCa                       >  1:167739/3‑150 (MQ=255)                                                                                                                            tgcAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAg                      >  1:889264/1‑150 (MQ=255)                                                                                                                             gcAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAgg                     >  2:692475/1‑150 (MQ=255)                                                                                                                              cAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCATGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAggc                    <  1:973935/150‑1 (MQ=255)                                                                                                                               agaagaTCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCttt                                                                                      >  1:481295/1‑83 (MQ=255)                                                                                                                               agaagaTCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCttt                                                                                      <  2:481295/83‑1 (MQ=255)                                                                                                                                 tcgaTCAGCGGCGCGGCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAggcg                   >  1:536401/3‑148 (MQ=255)                                                                                                                                 tcgaTCAGCGGCGCGGCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAggcg                   <  2:536401/146‑1 (MQ=255)                                                                                                                                  agaTCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGgcggcg                >  1:679459/1‑150 (MQ=255)                                                                                                                                   gaTCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGGCGGCGa               >  1:551581/1‑150 (MQ=255)                                                                                                                                         cgccgcgccgCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGGCGGCGACAAGGc         <  2:312029/150‑1 (MQ=255)                                                                                                                                                ccgcTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGGCGGCGACAAGGCCGACTGa  <  2:726267/150‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                      TTGCTAACCATATATAATCCCGCTTTTTGCTGCCCCCCGGCAGCCAGCGTTATGGTTGACGAGAGACACCCATGCCCCTTTATGACTATCAATGTGCGTCCTGCGAGCACCGCATGGAAGTGCTGCAGAAGATCAGCGCCGCGCCGCTGATCGATTGCCCGGCCTGTCAGGCGCCGGCACTGAAAAAGCTGCTGTCGGTGCCAGGCTTTCGCCTGAGCGGTAACGGTTGGTACGAAACCGACTTCAAGACCGGGGCGAAAAAGAATCTGGCAGGCGGCGACAAGGCCGACTGA  >  NC_002947/1389814‑1390106

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑