Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,984,444 T→C 17.8% intergenic (+40/+49) 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_0029475,984,4440TC17.8% 94.6 / 14.0 47intergenic (+40/+49)PP_5242/ycaC‑IIGAF domain‑containing sensor histidine kinase/putative hydrolase
Reads supporting (aligned to +/- strand):  ref base T (19/18);  new base C (2/6);  total (21/26)
Fisher's exact test for biased strand distribution p-value = 2.52e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.85e-02

GCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGC  >  NC_002947/5984297‑5984587
                                                                                                                                                   |                                                                                                                                               
gCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTc                                                                                                                                                <  6:176634/149‑1 (MQ=255)
     cTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAAGGTCGGCTg                                                                                                                                           >  5:300444/1‑149 (MQ=255)
        tAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                         <  6:289797/148‑1 (MQ=255)
        tAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAg                                                                                                                                        <  7:209431/149‑1 (MQ=255)
           ttCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTGCGGTCGGCTGTTgggg                                                                                                                                     >  6:141559/1‑149 (MQ=255)
             cGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTAGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACTCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGc                                                                                                                                    <  4:247905/148‑1 (MQ=255)
               gTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGTTGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCggg                                                                                                                                 <  8:284218/149‑1 (MQ=37)
               gTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCggg                                                                                                                                 >  8:316342/1‑149 (MQ=255)
                tGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGt                                                                                                                                >  8:219926/1‑149 (MQ=255)
                    tCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTTAACCCGCGACTACGGTCGGCTGTGGGGGCGGGgtttc                                                                                                                            >  8:101549/1‑147 (MQ=255)
                         cccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGAGGCCGGATTCGTGGCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                       <  7:333759/149‑1 (MQ=255)
                          ccACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                       >  8:259581/1‑148 (MQ=255)
                           cACGGCGGGCAGCTGCAGGCTCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGGAAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGaa                                                                                                                     <  7:73408/149‑1 (MQ=25)
                                cggGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                <  7:98813/149‑1 (MQ=25)
                                  ggCAGCTGCAGGCGCTGGTGTCGCCGTTGGGTGGATGCCGGATGCGTGTCAGTCTGCCTTTGAATCACGCATCGCCTGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCa                                                                                                              <  5:141559/149‑1 (MQ=38)
                                         gCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGCAGGAGCGGGTTTACCCGCGaa                                                                                                                     <  1:170181/135‑1 (MQ=25)
                                               gcTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCTGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                  <  1:337719/116‑1 (MQ=21)
                                                    tgtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAgc                                                                                            <  7:101549/149‑1 (MQ=255)
                                                        gCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCAAAGCCTGTGACGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCAGTAgg                                                                                                                                       >  5:367293/1‑102 (MQ=255)
                                                          aGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTAGCGGGTAAAACCGCTCCTACGGTCGGCGGTTGGGGCGGGTTTAACCGCGAAGAGGCCAGTACAGGTTTAAATAAGCGCGAgg                                                                                      >  3:20492/1‑149 (MQ=255)
                                                                         ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAgg                                                                                                                 <  3:60078/107‑1 (MQ=255)
                                                                         ggATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAgg                                                                                                                 >  4:60078/1‑107 (MQ=255)
                                                                                tgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGc                                                                                                                                    >  2:324812/1‑81 (MQ=17)
                                                                                tgtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGc                                                                                                                                    <  1:324812/81‑1 (MQ=17)
                                                                                 gtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcat                                                                >  4:273111/1‑148 (MQ=255)
                                                                                 gtCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACACGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtgat                                                                >  5:277667/1‑148 (MQ=255)
                                                                                  tCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                              <  7:316342/149‑1 (MQ=255)
                                                                                     gTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCGACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTGATCAGGt                                                           >  4:78568/1‑149 (MQ=255)
                                                                                          ccTTTGAATCCCGCATAGCCTGGGCCGGCGTCTTCGCGGGTAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                      <  6:300444/149‑1 (MQ=255)
                                                                                          ccTTTGAATCACGCATCGCCGGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                      <  6:353521/149‑1 (MQ=255)
                                                                                          ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                         >  6:307908/1‑66 (MQ=255)
                                                                                          ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTa                                                                                                                                         <  5:307908/66‑1 (MQ=255)
                                                                                          ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAAGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAAAAGCGCGAGGCCAGCGCGGCGTAGCTGTTCATGAGGGTTCgg                                                      >  8:152665/1‑149 (MQ=37)
                                                                                             ttGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtc                                                                  >  5:89058/1‑134 (MQ=255)
                                                                                             ttGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGGCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtc                                                                  <  6:89058/134‑1 (MQ=255)
                                                                                              tGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAg                                                   <  7:259581/148‑1 (MQ=255)
                                                                                                 aTCACGCATAGCCTGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                               <  4:115304/149‑1 (MQ=255)
                                                                                                     cGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGAt                                           >  5:337289/1‑149 (MQ=255)
                                                                                                                          ttCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTa                        <  6:337289/147‑1 (MQ=255)
                                                                                                                             gcgGGAAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAg                   <  4:20492/149‑1 (MQ=255)
                                                                                                                                 gTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCt               >  4:343296/1‑149 (MQ=255)
                                                                                                                                    aaCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTc             <  3:273111/148‑1 (MQ=255)
                                                                                                                                     aCCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGa           >  7:127337/1‑149 (MQ=38)
                                                                                                                                           tCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTTCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGt     >  8:272964/1‑149 (MQ=255)
                                                                                                                                            ccTAGGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGtt    <  7:18764/149‑1 (MQ=255)
                                                                                                                                             cTACGGTCGGCTTTAGGGGCGGTTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGtt    <  7:13374/148‑1 (MQ=255)
                                                                                                                                              tACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTgc  >  7:87062/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
GCGATCTGTAGTTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGC  >  NC_002947/5984297‑5984587

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: ‑