Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	197,695	G→C	21.0%	T1067T (ACG→ACC)	PP_0168 →	putative surface adhesion protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	197,695	0	G	C	21.0%	102.2 / 22.2	43	T1067T (ACG→ACC)	PP_0168	putative surface adhesion protein
Reads supporting (aligned to +/- strand):  ref base G (20/14);  new base C (5/4);  total (25/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01

CAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCTTGTCCAACGG  >  NC_002947/197546‑197844                                                                                                                                                      |                                                                                                                                                      cAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACg                                                                                                                                                       <  2:425489/150‑1 (MQ=37) cAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACg                                                                                                                                                       >  1:336059/1‑150 (MQ=37)        ttACCGTTGAAGCCGGCAAAACCCAGGGCAGCGTCGACTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTc                                                                                                                                                >  1:257630/1‑150 (MQ=12)             gTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGAcc                                                                                                                                           >  2:360351/1‑150 (MQ=38)             gTTGAAGCCGGCAAAACCCAGGGCAGCGTCGACTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGAcc                                                                                                                                           >  1:309232/1‑150 (MQ=255)                   gCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATc                                                                                                                                     >  1:154939/1‑150 (MQ=38)                   gCCGGCAAAACCCAGGGCAGCGTCGACTTCCAGACACCGGCAAATGACGTCTACAACAACGGTTCGACTGTCAACGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGACCACGATc                                                                                                                                     <  1:320606/150‑1 (MQ=11)                    ccGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCa                                                                                                                                    <  2:181741/150‑1 (MQ=39)                               cAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTc                                                                                                                         <  1:360351/150‑1 (MQ=255)                                   gCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGaca                                                                                                                     <  1:275665/150‑1 (MQ=255)                                         tCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTGAGACCACGATCACCGACTCGGTGGACACCacta                                                                                                               >  2:476097/1‑150 (MQ=255)                                            aTTTCGAGCCTCCGGCCAATGACGGCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTg                                                                                                            <  1:88717/150‑1 (MQ=11)                                                ccAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGAc                                                                                                        <  2:336059/150‑1 (MQ=255)                                                  aGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGAccc                                                                                                      <  2:154939/150‑1 (MQ=255)                                                   gACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCt                                                                                                     >  1:348633/1‑150 (MQ=255)                                                    aCCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGACCACGATCaa                                                                                                                                   <  2:157609/119‑2 (MQ=11)                                                    aCCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGACCACGATCaa                                                                                                                                   >  1:157609/1‑118 (MQ=14)                                                    aCCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGACCACGATCaa                                                                                                                                   <  2:157441/119‑2 (MQ=17)                                                    aCCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGACCACGATCaa                                                                                                                                   >  1:157441/1‑118 (MQ=14)                                                      cccGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGAc                                                                                                  <  2:341835/150‑1 (MQ=255)                                                       ccGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGAcc                                                                                                 >  2:390063/1‑150 (MQ=255)                                                                         aacaacGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTACGACCCTGACCGCCTCGCCAAGCGTGAcc                                                                               >  1:264618/1‑150 (MQ=255)                                                                         aacaacGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGa                                                                                                                                             >  1:104384/1‑88 (MQ=25)                                                                         aacaacGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACCCCGGCTCAGa                                                                                                                                             <  2:104384/88‑1 (MQ=25)                                                                         aacaacGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGAGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGGCGACACCACTACTTCGACCCTGACCGCCTCGCCAACCGTGccc                                                                               >  2:80097/1‑150 (MQ=17)                                                                                gTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGaa                                                                            >  2:426871/1‑146 (MQ=255)                                                                                gTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGaa                                                                            <  1:426871/146‑1 (MQ=255)                                                                                    gACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGt                                                                    >  1:456382/1‑150 (MQ=255)                                                                                       tGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGAc                                                                                                  <  1:259517/117‑1 (MQ=255)                                                                                       tGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGAc                                                                                                  >  2:259517/1‑117 (MQ=255)                                                                                                 aCCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAggcggc                                                                      >  2:139803/1‑135 (MQ=255)                                                                                                 aCCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAggcggc                                                                      <  1:139803/135‑1 (MQ=255)                                                                                                     tCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGa                                                   <  2:96473/150‑1 (MQ=255)                                                                                                               cacaGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCaa                                         >  1:471865/1‑150 (MQ=255)                                                                                                                      ggcaacttCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGcc                                  >  2:28658/7‑150 (MQ=255)                                                                                                                                   aaCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTaa                     >  2:537150/1‑150 (MQ=255)                                                                                                                                      tGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCaa                                                                                       >  2:435016/1‑81 (MQ=255)                                                                                                                                      tGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCaa                                                                                       <  1:435016/81‑1 (MQ=255)                                                                                                                                       gACCCCGCACCCGACGGCGGCTCAGACCACGATCACCGACTCGGACGACACCACTACTGCTACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGt                 >  2:235760/1‑150 (MQ=255)                                                                                                                                           ccGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGAcc             >  1:542372/1‑150 (MQ=255)                                                                                                                                            cGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGAcc                                                                                                       >  2:13010/1‑59 (MQ=255)                                                                                                                                            cGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGAcc                                                                                                       <  1:13010/59‑1 (MQ=255)                                                                                                                                            cGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCt            >  1:448835/1‑150 (MQ=255)                                                                                                                                                cccGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCTTGTc        <  2:456382/150‑1 (MQ=255)                                                                                                                                                 ccGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCTTGTcc       >  1:240742/1‑150 (MQ=255)                                                                                                                                                      gCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCTTGTCCAACgg  >  2:266741/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                      CAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACTGTCAGCGTCACCATCGAGAACGCCACAGGCGGTAATTTCGAGCAACTGACCCCGAACCCGACGCCGGCTCAGACCACGATCACCGACTCGGTCGACACCACTACTGCGACCCTGACCGCCTCGCCAAGCGTGACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTAACCGTGACCTTGTCCAACGG  >  NC_002947/197546‑197844

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑