Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,839,266 C→G 8.8% intergenic (+43/‑137) ccoP‑I → / → PP_4254 cbb3‑type cytochrome c oxidase subunit/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,839,2660CG 8.8% 124.6 / 2.8 42intergenic (+43/‑137)ccoP‑I/PP_4254cbb3‑type cytochrome c oxidase subunit/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (15/23);  new base G (2/2);  total (17/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGCAGGCCGAGATCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGCTTGTTGCCTCAGTGGGCTTCGCTC  >  NC_002947/4839122‑4839415
                                                                                                                                                |                                                                                                                                                      
gcgcAGGCCGAGATCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGACAGGCATGTGCCGCCTGTGAGATCGAGCGCCGCCcgcgc                                                                                                                                                   >  2:1771755/1‑150 (MQ=255)
 cgcAGGCCGAGATCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCcgcgcg                                                                                                                                                  <  2:543726/150‑1 (MQ=255)
        cGAGATCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCg                                                                                                                                           >  2:972077/1‑150 (MQ=255)
          agaTCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGat                                                                                                                                         <  2:458351/150‑1 (MQ=255)
           gaTCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCGCGGGCGGCGCTCGatc                                                                                                                                        <  2:804325/150‑2 (MQ=255)
             tCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATc                                                                                                                                      >  1:441340/1‑150 (MQ=255)
             tCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATc                                                                                                                                      <  1:505798/150‑1 (MQ=255)
                aGGGGAATGACAAGGTGCACCTGTTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGc                                                                                                                                   <  1:324918/150‑1 (MQ=255)
                aGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTAACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGc                                                                                                                                   >  1:757162/1‑150 (MQ=255)
                 ggggAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGcc                                                                                                                                  >  2:652068/1‑150 (MQ=255)
                    gAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGAGCGGCGCGCGATATCCGccccc                                                                                                                               >  1:722016/1‑149 (MQ=255)
                          cAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCcgcgc                                                                                                                                                   >  2:1178408/1‑124 (MQ=255)
                          cAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCcgcgc                                                                                                                                                   <  1:1178408/124‑1 (MQ=255)
                          cAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATaa                                                                                                                         >  1:2099935/1‑150 (MQ=255)
                           aaGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAAc                                                                                                                        >  2:126991/1‑150 (MQ=255)
                                         ggcggcTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTaca                                                                                                          <  1:2428196/150‑1 (MQ=255)
                                               ttACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGACCCGAACTCGTCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACAcccccc                                                                                                    >  2:2276821/1‑149 (MQ=255)
                                                         aGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑Tc                                                                                         <  1:2084228/150‑1 (MQ=255)
                                                               tCGGAGGATTGTTCGGCTGAGGCTGTGACGGCCAAGTCAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATTGCCCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTc                                                                                   <  1:1342776/150‑1 (MQ=255)
                                                                       tGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGTCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATa                                                                           <  2:239074/150‑1 (MQ=255)
                                                                         gTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCGGCCCCACCACACCCCCCCaaaaaaaaa                                                                          >  1:1278363/1‑144 (MQ=38)
                                                                                    gCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAAc                                                                                                                        >  2:400030/1‑93 (MQ=255)
                                                                                    gCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAAc                                                                                                                        <  1:400030/93‑1 (MQ=255)
                                                                                       gtgACGGCCACGTGAGTCAGCAGGCCGGCCTGCGCCTCATGACAGATCGATCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGcccc                                                           <  2:1840536/150‑1 (MQ=255)
                                                                                                aaGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTg                                                  <  1:652068/150‑1 (MQ=255)
                                                                                                  gTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCa                                                                                                                      <  1:1276093/81‑1 (MQ=255)
                                                                                                  gTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCa                                                                                                                      >  2:1276093/1‑81 (MQ=255)
                                                                                                  gTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCa                                                <  1:868181/150‑1 (MQ=255)
                                                                                                    gAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCCCCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCAcc                                              <  1:608641/150‑1 (MQ=255)
                                                                                                          gCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCTCCTACCCTTGCACCCCCAcc                                        <  2:757162/150‑1 (MQ=255)
                                                                                                              aaaGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCgcgg                                                                                                                                                 <  1:1071819/42‑1 (MQ=255)
                                                                                                              aaaGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCgcgg                                                                                                                                                 >  2:1071819/1‑42 (MQ=255)
                                                                                                               aaGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAaca                                   <  1:972077/150‑1 (MQ=255)
                                                                                                                      ttGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTaa                            <  2:1903774/150‑1 (MQ=255)
                                                                                                                        gccgccTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCCAACCCTACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGc                          <  2:722016/150‑1 (MQ=255)
                                                                                                                          cgccTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCaaa                                                                                                                 <  2:1586131/62‑1 (MQ=255)
                                                                                                                          cgccTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCaaa                                                                                                                 >  1:1586131/1‑62 (MQ=255)
                                                                                                                          cgccTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTaca                                                                                                          <  1:858577/69‑1 (MQ=255)
                                                                                                                          cgccTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTaca                                                                                                          >  2:858577/1‑69 (MQ=255)
                                                                                                                                     tCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGCTTGTTGCCTCAGt             <  1:137601/150‑1 (MQ=255)
                                                                                                                                       gAGCGCCGCGCGGGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTa                                                                                                            >  1:1121127/1‑54 (MQ=21)
                                                                                                                                       gAGCGCCGCGCGGGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTa                                                                                                            <  2:1121127/54‑1 (MQ=21)
                                                                                                                                            ccgcccgcGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGCTTGTTGCCTCAGTGGGCTTc      <  1:2130337/150‑1 (MQ=255)
                                                                                                                                             cgcccgcGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAAc                                                                               <  1:889453/76‑1 (MQ=255)
                                                                                                                                             cgcccgcGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAAc                                                                               >  2:889453/1‑76 (MQ=255)
                                                                                                                                                ccgcGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGCTTGTTGCCTCAGTGGGCTTCGCTc  <  1:126991/150‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                      
GCGCAGGCCGAGATCCAGGGGAATGACAAGGTGCACCTGCTGGCGGCTTACGTGTATAGCCTGTCGCAGGATGGTTCGGCTGAGGCTGTGACGGCCAAGTGAGTTCGCCGAAAGGCATTTGCCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCTCGATATCCGCCCCACCATAACCATCAAACCTTACACCCCCGCCCCACCA‑TCCCCCTCAAACCATACCCCCACCGCCGCCCCCTTCCCTTGCACCCCCACCGAACACAACTAAGCTTGTTGCCTCAGTGGGCTTCGCTC  >  NC_002947/4839122‑4839415

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑