Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,704,543 C→A 11.7% intergenic (+68/+44) PP_5006 → / ← PP_5007 TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,704,5430CA11.7% 101.7 / 7.5 44intergenic (+68/+44)PP_5006/PP_5007TetR family transcriptional regulator/polyhydroxyalkanoate granule‑associated protein GA2
Reads supporting (aligned to +/- strand):  ref base C (19/18);  new base A (3/2);  total (24/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.62e-02

GCCGCATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTGGCAGCTG  >  NC_002947/5704409‑5704690
                                                                                                                                       |                                                                                                                                                    
gccgcATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑g                                                                                                                                       >  5:88144/1‑149 (MQ=255)
 ccgcATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑gg                                                                                                                                      <  1:193867/149‑1 (MQ=255)
  cgcATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGATGCGCCAAACCTTGTAGGAGC‑ggg                                                                                                                                     <  6:361904/149‑1 (MQ=37)
   gcATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGATGCGCCAAACCTTGTAGGAGC‑GGGt                                                                                                                                    <  5:65616/149‑1 (MQ=37)
     aTCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑gg                                                                                                                                      >  1:165111/1‑145 (MQ=255)
     aTCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑gg                                                                                                                                      <  2:165111/145‑1 (MQ=255)
          caggcccaggccCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTAccc                                                                                                                              <  4:132069/148‑1 (MQ=255)
          caggcccaggccCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCcg                                                                                                                             <  7:142000/149‑1 (MQ=255)
             gcccaggcccGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCcgcg                                                                                                                           >  6:79956/1‑148 (MQ=255)
             gcccaggcccGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCcgcg                                                                                                                           >  2:239010/1‑148 (MQ=255)
              cccaggcccGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGGATCTTGTAGGAGC‑GGGTTTACCcgcg                                                                                                                           >  5:292686/1‑147 (MQ=255)
               ccaggcccGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCcgcg                                                                                                                           >  7:340539/1‑146 (MQ=255)
                 aggcccGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCgaagaa                                                                                                                      <  5:224991/149‑1 (MQ=255)
                           ggcggcggAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCgg                                                                                                            >  6:773/1‑149 (MQ=255)
                                  gacccgcTGGCAGTCACGACCCGGGAGGGGTCGGCCGGCGGGCGATGTCGTGTGGCCGCCGCCGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTGGTCGGAGG‑GGGTTTACCCGCGAAGAAGGCGACGCGGTatcaga                                                                                                     <  6:311938/144‑1 (MQ=255)
                                          ggCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCGCCT‑ACAAGGGTTGGCGCATCGTGTAGGCGC‑GGGTTTACCCGCGACGAAGGCGCCGCGGTATCAGATCAAGGTa                                                                                             >  3:228001/1‑149 (MQ=255)
                                                 aaGTACCTGGCGGGGTAGGCCGGCTGGAGATGTTGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGTGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGc                                                                                      <  2:15673/149‑1 (MQ=255)
                                                     aCCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAAACCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGt                                                                                  >  3:377006/1‑149 (MQ=255)
                                                          gAGGGGTAGGCCTGCTGGTGATGTTGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCGGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTg                                                                             <  5:130893/149‑1 (MQ=255)
                                                          gAGGGGTAGGCCTGCTGGAGTTGTCGTGTTCCCGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGt                                                                              <  1:178412/148‑1 (MQ=255)
                                                                       gctgGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGtgct                                                                >  1:243660/1‑149 (MQ=255)
                                                                          ggAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTgctgct                                                             >  2:92699/1‑149 (MQ=255)
                                                                           gagaTGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGctgctg                                                            <  5:773/149‑1 (MQ=255)
                                                                           gagaTGTAGTGTTGCAGCCGACGCATTCGCGGGTAAAACCCCTGCTAAAAAGGTTTGG‑GGGTATTGTAGGGGCGGGGTTTACCC‑CGAAGAAGGGGGCGCGGGTTGAGATAAGGGTTCCGGTGGCAGTCGGGGGCGACGGGGtggggcgg                                                            >  4:192814/1‑143 (MQ=255)
                                                                                 tAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCgg                                                       <  3:192814/148‑1 (MQ=255)
                                                                                 tAGGGTTCCAGCCGACCCATTCGCGGGCAACCCCCCTCCC‑ACACGGTTGGGCGCCTCTTGTAGGAGC‑GGGATTACCCGCGAAGAAGGCGACGCGGTATCAGATCCGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCggg                                                      <  8:340539/149‑1 (MQ=37)
                                                                                    ggtTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTTCTGCTGGCCGGGGTg                                                   <  2:157915/148‑1 (MQ=255)
                                                                                          aGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGtg                                                                  <  5:303910/128‑1 (MQ=255)
                                                                                          aGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGtg                                                                  >  6:303910/1‑128 (MQ=255)
                                                                                              gACGCATTCGCGGGTAAACCCGCTGCT‑ACAAGGTTTGGGGCATGTTGTTGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGGATGAGCTGAGGGGACCGGTGGCAGTGGGTGGCGCCGGGGTGGTGCTGGGCGGGGTGGCGGGAGTTg                                         >  4:273011/1‑149 (MQ=255)
                                                                                                       gcgGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCtg                                <  4:377006/149‑1 (MQ=255)
                                                                                                         gggTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCtgtg                              >  1:188305/1‑149 (MQ=255)
                                                                                                          ggTAACCCCGCTCCT‑ACACGGTTTGGCGCATCTTGTCGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTgg                             <  4:226911/149‑1 (MQ=255)
                                                                                                                 ccGCTCCT‑ACAAGATGCGCCAAACCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGGGGGTGTTGGGGgtggtgtggtgggtgg                      >  2:156342/1‑143 (MQ=21)
                                                                                                                   gCTCCT‑ACAAGATGCGCCAAACCTTGTAGGAGC‑GGGTTTACCCGCGAATAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAg                    >  4:66790/1‑149 (MQ=37)
                                                                                                                   gCTCCT‑ACAAGATGCGCCAAACCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAg                    >  5:386922/1‑149 (MQ=38)
                                                                                                                    cTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGCAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCGGTGGTCGCTGCAgg                   >  5:213250/1‑149 (MQ=255)
                                                                                                                     tCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGgc                  >  5:154683/1‑149 (MQ=255)
                                                                                                                          aCAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGATGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAg              >  6:235614/1‑149 (MQ=255)
                                                                                                                          aCAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAg              >  6:105737/1‑149 (MQ=255)
                                                                                                                               gTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTg         >  8:207650/1‑149 (MQ=255)
                                                                                                                                tttGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTgg        <  1:92699/149‑1 (MQ=255)
                                                                                                                                 ttGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTCCCGGTGCCAGGCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTGGc       <  7:207650/149‑1 (MQ=255)
                                                                                                                                   ggCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTGGCAg     >  7:103126/1‑149 (MQ=255)
                                                                                                                                      gcATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTTGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTGGCAGCTg  <  2:243660/149‑1 (MQ=255)
                                                                                                                                      gcATCATGTACGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGAATCAGATCAGGGTACCGGTGCCAGTCCGTGCCGACGGCGTGCTGCTGGCAGTGGTGGCGGCATTTGACGGTGCTGTGGTCGCTGCAGGAGCAGCGATGGCAGCTg  >  8:268318/1‑149 (MQ=255)
                                                                                                                                       |                                                                                                                                                    
GCCGCATCTGCAGGCCCAGGCCCGGGCGGCGGCGGAGCAGCTGGCAGTGAAGTACCTGGAGGGGTAGGCCTGCTGGAGATGTAGTGTTGCAGCCGACGCATTCGCGGGTAAACCCGCTCCT‑ACAAGGTTTGGCGCATCTTGTAGGAGC‑GGGTTTACCCGCGAAGAAGGCGACGCGGTATCAGATCAGGGTACCGGTGCCAGTCGGTGCCGACGGCGTGCTGCTGGCCGGGGTGGCGGCAGTTGCCGGTGCTGTGGTCGCTGCAGGCGCAGCGCTGGCAGCTG  >  NC_002947/5704409‑5704690

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: ‑