Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 539,618 G→A 8.5% V665I (GTT→ATT)  rpoB → DNA‑directed RNA polymerase subunit beta

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947539,6180GA 8.5% 132.2 / 3.2 47V665I (GTT→ATT) rpoBDNA‑directed RNA polymerase subunit beta
Reads supporting (aligned to +/- strand):  ref base G (19/24);  new base A (2/2);  total (21/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01

TCACGTCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGCATGGAGCGCAACGTTGCC  >  NC_002947/539479‑539767
                                                                                                                                           |                                                                                                                                                     
tCACGTCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTAAAAAAATGCTCCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGt                                                                                                                                             <  2:538296/150‑1 (MQ=255)
 cACGTCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCATCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGtt                                                                                                                                            <  1:905303/150‑1 (MQ=255)
   cGTCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGc                                                                                                                                          >  2:944769/1‑150 (MQ=255)
     tCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGCCGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAg                                                                                                                                        <  1:766977/150‑1 (MQ=255)
                gCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGAtt                                                                                                                             <  1:830732/150‑1 (MQ=255)
                 cTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACCTTGCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTc                                                                                                                            <  1:258065/150‑1 (MQ=255)
                     ggCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTAACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGtt                                                                                                                        <  2:518806/150‑1 (MQ=255)
                           gATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGa                                                                                                                  <  1:832437/150‑1 (MQ=255)
                            aTGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAg                                                                                                                 <  1:954018/150‑1 (MQ=255)
                                 cGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCacga                                                                                                            <  1:102337/150‑1 (MQ=255)
                                    cAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCacgacga                                                                                                         <  2:916912/150‑1 (MQ=255)
                                       gaagCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGc                                                                                                      >  2:59730/1‑150 (MQ=255)
                                               tGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCac                                                                                                              >  1:450302/1‑134 (MQ=255)
                                               tGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCac                                                                                                              <  2:450302/134‑1 (MQ=255)
                                                gATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGc                                                                                             <  1:944769/150‑1 (MQ=255)
                                                    gATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTg                                                                                         >  1:500915/1‑150 (MQ=255)
                                                      tGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGAt                                                                                       >  1:991027/1‑150 (MQ=255)
                                                          cTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGtt                                                                                                                        <  1:342184/113‑1 (MQ=255)
                                                          cTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGtt                                                                                                                        >  2:342184/1‑113 (MQ=255)
                                                           tGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGtt                                                                                  <  2:1109413/150‑1 (MQ=255)
                                                            ggTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACTATGATAAAGAATAGTTTGTATGATGTTGTTTCCGTTGTAGCGTCGCTGATTCCGTTCCTCTTGCACGACGACGCCAACCGTGCGTTGATGGGTTc                                                                                 <  1:252624/150‑1 (MQ=255)
                                                                  agggcGTCAGCTGAACGAATTCACCGTCAAGGTGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACAt                                                                           <  1:1077842/146‑1 (MQ=255)
                                                                       gTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGATTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGc                                                                      >  1:546756/1‑150 (MQ=255)
                                                                       gTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGATTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGc                                                                      >  1:549514/1‑150 (MQ=255)
                                                                           ccTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGaa                                                                              >  2:866042/1‑138 (MQ=255)
                                                                           ccTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGaa                                                                              <  1:866042/138‑1 (MQ=255)
                                                                              gAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGAt                                                                                       <  2:323812/126‑1 (MQ=255)
                                                                              gAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGAt                                                                                       >  1:323812/1‑126 (MQ=255)
                                                                               aaCGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCt                                                              >  1:643942/1‑150 (MQ=255)
                                                                                            tCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGc                                                 >  2:298498/1‑150 (MQ=255)
                                                                                            agaaGGTGCGGGAAGACGTCACCCTGATGGACGTTTCGGCGAAGCAGGTTGTTTGGGTTGCAGCGTCGCTGATTCCGTTCCTAGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGc                                                 >  2:381106/3‑150 (MQ=255)
                                                                                                   gcCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGATTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGa                                          <  2:546756/150‑1 (MQ=255)
                                                                                                   gcCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGATTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGa                                          <  2:549514/150‑1 (MQ=255)
                                                                                                      ggAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACaa                                       <  1:803271/150‑1 (MQ=255)
                                                                                                         aGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGcc                                    <  1:59730/150‑1 (MQ=255)
                                                                                                             gTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCGTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTg                                <  2:500915/150‑1 (MQ=255)
                                                                                                             gTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTg                                >  1:813769/1‑150 (MQ=255)
                                                                                                                aCCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTggta                             >  1:882419/1‑150 (MQ=255)
                                                                                                                 cccTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTggtag                            >  1:60129/1‑150 (MQ=255)
                                                                                                                  ccTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGc                                                                                                                                  <  1:54501/47‑1 (MQ=255)
                                                                                                                  ccTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGc                                                                                                                                  >  2:54501/1‑47 (MQ=255)
                                                                                                                  ccTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCCAGTGCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGACCATGCAGCGTCAGGCTATACCGACCCTGCGTGCCGACAAGCCGCTggtagg                           >  1:202846/1‑150 (MQ=255)
                                                                                                                      aTGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTAcc                       >  1:298654/1‑150 (MQ=255)
                                                                                                                       tGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCg                      <  1:360839/150‑1 (MQ=255)
                                                                                                                         gACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGc                    >  1:732125/1‑150 (MQ=255)
                                                                                                                                 gCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGCATGGAgcg            >  1:539766/1‑150 (MQ=255)
                                                                                                                                       gCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGCATGGAGCGCAACGt      <  2:813769/150‑1 (MQ=255)
                                                                                                                                           gttgttTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGaa                                                                              <  2:305122/74‑1 (MQ=255)
                                                                                                                                           gttgttTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGaa                                                                              >  1:305122/1‑74 (MQ=255)
                                                                                                                                           gttgttTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGCATGGAGCGCAACGTTGcc  >  1:17686/1‑150 (MQ=255)
                                                                                                                                           |                                                                                                                                                     
TCACGTCATCGCACAGGCTTCGGCCGCGATGAACGACAAGAAGCAACTGATCGATGAGCTGGTAGCAGTTCGTCACCTGAACGAATTCACCGTCAAGGCGCCGGAAGACGTCACCCTGATGGACGTTTCGCCGAAGCAGGTTGTTTCCGTTGCAGCGTCGCTGATTCCGTTCCTCGAGCACGACGACGCCAACCGTGCGTTGATGGGTTCGAACATGCAGCGTCAGGCTGTACCGACCCTGCGTGCCGACAAGCCGCTGGTAGGTACCGGCATGGAGCGCAACGTTGCC  >  NC_002947/539479‑539767

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑