Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,301,115	C→T	15.9%	A79V (GCC→GTC)	PP_3774 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,301,115	0	C	T	15.9%	70.6 / 3.9	31	A79V (GCC→GTC)	PP_3774	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (11/15);  new base T (3/2);  total (14/17)
Fisher's exact test for biased strand distribution p-value = 6.36e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGCGATTGCCCGCTTTCCCAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTGGGGTTTC  >  NC_002947/4300969‑4301261                                                                                                                                                   |                                                                                                                                                   aGCGATTGCCCGCTTTCCCAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCa                                                                                                                                                 <  2:190820/150‑1 (MQ=255)                  ccAGCATCCTGGCGGTGCTCAGCGATGGCTCGATCCAGTTCTCCGCCCCCACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGcc                                                                                                                                <  2:94429/150‑1 (MQ=255)                   cAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGa                                                                                                                                              >  1:196803/1‑135 (MQ=255)                   cAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGa                                                                                                                                              <  2:196803/135‑1 (MQ=255)                   cAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCa                                                                                                                               >  1:77996/1‑150 (MQ=255)                        tCGTGACGGTGATCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACaa                                                                                                                          <  2:207606/150‑1 (MQ=255)                               ggTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCt                                                                                                                   >  1:97657/1‑150 (MQ=255)                                              cTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACAGGAATCGCCAGACAATGACGCTGACCAAGGTAAACTc                                                                                                    >  1:5628/1‑150 (MQ=255)                                               tCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCg                                                                                                   >  2:500463/1‑150 (MQ=255)                                               tCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCg                                                                                                   <  2:424515/150‑1 (MQ=255)                                                cGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCgg                                                                                                  <  2:77996/150‑1 (MQ=255)                                                     cAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGa                                                                                                                       >  2:52699/1‑124 (MQ=255)                                                     cAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGCACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGa                                                                                                                       <  1:52699/124‑1 (MQ=255)                                                         tctcAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAgg                                                                                         <  2:97657/150‑1 (MQ=255)                                                                 ccaaccaaAGGGGCTTCGAGCAAAGGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGGCGCTGGCCAGCGTCCAgtc                                                                                                                                              >  1:120195/1‑87 (MQ=39)                                                                 ccaaccaaAGGGGCTTCGAGCAAAGGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGGCGCTGGCCAGCGTCCAgtc                                                                                                                                              <  2:120195/89‑3 (MQ=38)                                                                               ttCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGt                                                                   >  1:491457/1‑150 (MQ=255)                                                                                     cAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCgg                                                             <  2:578955/150‑1 (MQ=255)                                                                                       aaaGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGgcgc                                                                                               >  1:4086/1‑114 (MQ=255)                                                                                       aaaGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGgcgc                                                                                               <  2:4086/114‑1 (MQ=255)                                                                                                           tGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTaaa                                        >  2:393164/1‑149 (MQ=255)                                                                                                           tGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTaaa                                        <  1:393164/149‑1 (MQ=255)                                                                                                                                  cTGGGCGCTGGCCAGCGTCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTAcgcg                                                              >  2:545083/1‑104 (MQ=255)                                                                                                                                  cTGGGCGCTGGCCAGCGTCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTAcgcg                                                              <  1:545083/104‑1 (MQ=255)                                                                                                                                  cTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCg                                                                                                   >  2:197459/1‑67 (MQ=255)                                                                                                                                  cTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCg                                                                                                   <  1:197459/67‑1 (MQ=255)                                                                                                                                   tGGGCGCTGGCCAGCGTCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATc               >  1:388586/1‑150 (MQ=255)                                                                                                                                           ggCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTggg       <  2:7427/150‑1 (MQ=255)                                                                                                                                              cAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTgg        <  1:13544/146‑1 (MQ=255)                                                                                                                                              cAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTgg        >  2:13544/1‑146 (MQ=255)                                                                                                                                               aGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGCTCAGCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTGGGGttt   <  1:500463/150‑1 (MQ=255)                                                                                                                                                gcgcCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTGGGGTTTc  >  2:213925/1‑150 (MQ=255)                                                                                                                                                   |                                                                                                                                                   AGCGATTGCCCGCTTTCCCAGCATCGTGACGGTGCTCAGCGATGGCTCGATCCAGTTCTCAGCCCCAACCAAAGGGGCTTCGAGCAAAAGCACCCACAGGACACGCTGCGAATGGACGGAAACGCAAGACTGGACGCTGGCCAGCGCCCAGGATCACTGGAATCGCCAGACAATGACGCTGACCAAGGTCAACTCGGCGCAGAAGGTGGTCATCGCCCAGATGCACGTACGCGGGGACGACGGCCCGCCGGTAAAGGTGTTCTGGAACAAGGGCAACATCACCCTGGGGTTTC  >  NC_002947/4300969‑4301261

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: ‑