Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,984,449 T→C 10.3% intergenic (+45/+44) PP_5242 → / ← ycaC‑II GAF domain‑containing sensor histidine kinase/putative hydrolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,984,4490TC10.3% 93.4 / 2.3 41intergenic (+45/+44)PP_5242/ycaC‑IIGAF domain‑containing sensor histidine kinase/putative hydrolase
Reads supporting (aligned to +/- strand):  ref base T (17/17);  new base C (2/2);  total (22/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

GGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAG  >  NC_002947/5984311‑5984592
                                                                                                                                          |                                                                                                                                               
ggTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCgg                                                                                                                                       <  6:16979/149‑1 (MQ=255)
    gCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAATCCCGCTACTACGGGCGGCTGTAGGGGCGGGtt                                                                                                                                    >  3:201325/1‑148 (MQ=255)
      tCAGGCCCACGGTGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTAGCGGGTAAACCCGCTCCTACGGTCGGCGGTAGGGGCGGGGTTAc                                                                                                                                 >  3:159229/1‑149 (MQ=255)
      tCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCt                                                                                                                                                 >  6:241766/1‑133 (MQ=255)
      tCAGGCCCACGGCCGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCt                                                                                                                                                 <  5:241766/133‑1 (MQ=255)
        aGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTAcc                                                                                                                                <  1:88918/148‑1 (MQ=255)
            ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                            >  5:88928/1‑148 (MQ=255)
            ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCCCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                       >  4:264177/1‑137 (MQ=37)
            ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCCCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                       <  3:264177/137‑1 (MQ=37)
                         cTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                       >  1:122669/1‑124 (MQ=21)
                         cTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                       <  2:122669/124‑1 (MQ=21)
                             aGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGtt                                                                                                          >  5:276897/1‑149 (MQ=255)
                               gcgcTGTTGTCGCAGTTGGGTGGATGCCGTATTCGTGTCAGTCTGCTTTTGAATCACGCATTGCCTGTGCCGGCGTCTTCGCGGGTAAACCCGGTCCTACGGTGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTa                                                                                                        <  6:88928/149‑1 (MQ=37)
                                  cTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAt                                                                                                     <  5:238815/149‑1 (MQ=255)
                                   tggttgcGCTGTTGGGTGTAGGCCGGTTTCGTGTCAGTCTGCCTTTTAATCACCCATAGCGTGTGCCGGCCTCTTGGCGGGTAAACCCGCTCCTAGGGGCGGCTGTAGGGGCGGTTTTACCCGCGAAGAGGc                                                                                                                     <  6:106009/126‑1 (MQ=255)
                                   tGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGc                                                                                                                     >  5:106009/1‑132 (MQ=255)
                                   tGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAt                                                                                                     >  6:261200/1‑148 (MQ=255)
                                                           ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGc                                                                            >  3:219164/1‑149 (MQ=255)
                                                                 gtgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtca                                                                      >  1:170687/1‑149 (MQ=255)
                                                                 gggtgaGTCTGCATTTGATTCACGCATTGCGTGTGCCGGCCTGTTCGCGGGAAAACCGGCTCCTCCGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGTGCGAGGCCAGCGCTGCGTAGCTGttga                                                                      <  4:201325/144‑3 (MQ=37)
                                                                       gTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCATCGCGAGGGCAGCGCTGCGTAGCTGTTGATCAGGt                                                                >  3:35676/1‑149 (MQ=255)
                                                                            ccTTTGAATCACGAATTGAATTTTCCGGCCGTTTCGCTGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                           <  4:35676/149‑1 (MQ=38)
                                                                             cTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACGCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGt                                                                         >  1:56284/1‑134 (MQ=255)
                                                                             cTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGt                                                                         <  2:56284/134‑1 (MQ=255)
                                                                             cTTTGAATCACGCATAGCCTGTGCCGGCCTCATCGCCGGTAAAACCCCTCCTACGGTCGGCAGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCCGCGCTGCCTAGCTGTTCAACACGTTGCgg                                                           >  7:161692/1‑148 (MQ=38)
                                                                                   aTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                                    <  2:57387/149‑1 (MQ=255)
                                                                                    tCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCg                                                            <  2:160176/140‑1 (MQ=255)
                                                                                    tCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCg                                                            >  1:160176/1‑140 (MQ=255)
                                                                                     cACGCATAGCCTGTGCCGGCCTCTTCGCTGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                                   <  7:139721/132‑1 (MQ=255)
                                                                                     cACGCATAGCCTGTGCCGGCCTCTTCGCCGGTTAAACCGCTACAAAGGTGGGCGGTAGGGGCGGGTTTAACCCCGAAGAGGCCACTAAAGGTTTAAATAAGCGCGAGGCCAGCGCAGCGTAACTGTtaataa                                                                   >  8:139721/1‑130 (MQ=255)
                                                                                              ccTGTGCCGGCCTCTTGGGGGGTAAACCCGCTCCTACGGTGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTg                                          <  8:161692/148‑1 (MQ=255)
                                                                                              ccTGTGCCGGCCGCTTCGCGGTTAACCCCGCTCCTCCGGTCGGCTGTTGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGCAGCTGTTCATCAGGTTGCGGTAGTTg                                                     <  1:144321/137‑1 (MQ=38)
                                                                                                    ccGGCCTCTGCGCGGGCAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTAACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGAcagc                                   <  3:162086/149‑1 (MQ=255)
                                                                                                       gCCTCTTCGCGGGTAAACCCGCTCCGACGGGGGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCCGTACAGGTTTTCATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATAAGGTTGCGGTAGTTGGGGGAACGCTGCGACAGCAgg                                >  2:54572/1‑149 (MQ=38)
                                                                                                            ttCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTAcc                           >  4:47097/1‑149 (MQ=255)
                                                                                                            ttCGCGGGAAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTa                             <  1:105890/147‑1 (MQ=255)
                                                                                                               gcgGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCa                         <  5:261200/148‑1 (MQ=255)
                                                                                                                cgGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGc                       <  6:276897/149‑1 (MQ=255)
                                                                                                                         ccGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATg              >  6:121582/1‑149 (MQ=255)
                                                                                                                               cTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTg        >  1:171576/1‑149 (MQ=255)
                                                                                                                               cTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTg        >  2:36662/1‑149 (MQ=255)
                                                                                                                                   ggTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTgcgc     >  6:67958/1‑148 (MQ=255)
                                                                                                                                     tCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAg  >  7:191417/1‑149 (MQ=255)
                                                                                                                                          |                                                                                                                                               
GGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAG  >  NC_002947/5984311‑5984592

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑