Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 538,830 T→C 12.9% L402P (CTG→CCG)  rpoB → DNA‑directed RNA polymerase subunit beta

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947538,8300TC12.9% 75.5 / 3.2 31L402P (CTG→CCG) rpoBDNA‑directed RNA polymerase subunit beta
Reads supporting (aligned to +/- strand):  ref base T (15/12);  new base C (2/2);  total (17/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.41e-01

ACACCACCAGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATCCGTAACGGCAAAGGCATCGTCGACGACATC  >  NC_002947/538701‑538975
                                                                                                                                 |                                                                                                                                                 
acacCACCAGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGa                                                                                                                               >  2:129033/1‑150 (MQ=255)
   ccaccaTCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGt                                                                                                                            <  1:503923/150‑1 (MQ=255)
   ccaccaGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGt                                                                                                                            >  2:379165/1‑150 (MQ=255)
    caacaGCAACCAACTGGAAGCGCTTGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGtt                                                                                                                           >  2:647683/4‑150 (MQ=255)
       caGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCaa                                                                                                                        <  2:199313/150‑1 (MQ=255)
       caGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCaa                                                                                                                        >  1:74278/1‑150 (MQ=255)
                 cTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATc                                                                                                              >  2:643014/1‑150 (MQ=255)
                  tGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCg                                                                                                             >  1:198988/1‑150 (MQ=255)
                            ggTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCga                                                                                                   <  1:379165/150‑1 (MQ=255)
                                   aTCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACATCCTGTTCTTCAGTGCCGAGCGTTACTAGCTGTCCGCCGGAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAg                                                                                            <  2:90076/150‑1 (MQ=255)
                                        ccGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCCGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTc                                                                                       >  1:760756/1‑150 (MQ=255)
                                          gCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCgg                                                                                     >  1:550511/1‑150 (MQ=255)
                                                    tCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGTCGTGCTGAg                                                                           >  2:307420/1‑150 (MQ=255)
                                                      cAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTa                                                                                                       <  1:331399/120‑1 (MQ=255)
                                                      cAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTa                                                                                                       >  2:331399/1‑120 (MQ=255)
                                                                   aaccaaGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACAtcgt                                                            >  1:477959/1‑150 (MQ=255)
                                                                      caaGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGa                                                         <  1:69913/150‑1 (MQ=255)
                                                                            cGCAGCCGAGACCCTGTGCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGAGCTTCTGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCt                                                   <  1:647683/150‑1 (MQ=255)
                                                                               aGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCCGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGaa                                                <  2:760756/150‑1 (MQ=255)
                                                                               aGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCCGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGaa                                                >  2:448170/1‑150 (MQ=255)
                                                                                        ccTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGt                                       >  1:458356/1‑150 (MQ=255)
                                                                                        ccTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGt                                       <  2:458356/150‑1 (MQ=255)
                                                                                         cTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTc                                      >  1:634918/1‑150 (MQ=255)
                                                                                             tCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCCGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGata                                  <  1:448170/150‑1 (MQ=255)
                                                                                                       gTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCgg                                                                                     >  2:131455/1‑89 (MQ=255)
                                                                                                       gTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCgg                                                                                     <  1:131455/89‑1 (MQ=255)
                                                                                                                 gCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATCCGTAACGGCAAAGGCAtc              <  1:643014/150‑1 (MQ=255)
                                                                                                                        gTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATcc                               <  1:363647/126‑1 (MQ=255)
                                                                                                                        gTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACACTGGTCGATATcc                               >  2:363647/1‑126 (MQ=255)
                                                                                                                           aCGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATCCGTAACGGCAAAGGCATCGTCGACGACa    <  2:634918/150‑1 (MQ=255)
                                                                                                                             gATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATCCGTAACGGCAAAGGCATCGTCGACGACATc  >  1:485672/1‑150 (MQ=255)
                                                                                                                                 |                                                                                                                                                 
ACACCACCAGCAACCAACTGGAAGCGCTGGTCGAGATCTACCGCATGATGCGTCCAGGCGAGCCGCCAACCAAGGACGCAGCCGAGACCCTGTTCAACAACCTGTTCTTCAGTGCCGAGCGTTACGATCTGTCCGCCGTAGGCCGCATGAAGTTCAACCGTCGTATCGGTCGTACCGAGATCGAGGGTTCGGGCGTGCTGAGCAAGGAAGACATCGTCGAGGTTCTGAAGACCCTGGTCGATATCCGTAACGGCAAAGGCATCGTCGACGACATC  >  NC_002947/538701‑538975

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: ‑