Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 365,894 C→T 8.3% A54V (GCG→GTG)  cdhR → HTH‑type transcriptional regulator CdhR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947365,8940CT 8.3% 133.9 / 3.1 48A54V (GCG→GTG) cdhRHTH‑type transcriptional regulator CdhR
Reads supporting (aligned to +/- strand):  ref base C (24/20);  new base T (2/2);  total (26/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01

TGGAGACGATTGCCTTTCTGTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCAACCACGAAGCTGTC  >  NC_002947/365750‑366042
                                                                                                                                                |                                                                                                                                                     
tgGAGACGATTGCCTTTCTGTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGTGa                                                                                                                                                     <  4:80436/147‑1 (MQ=255)
tgGAGACGATTGCCTTTCTGTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGTGa                                                                                                                                                     >  3:80436/1‑147 (MQ=255)
  gagaCGATTGCCTTTCTGTTGGTGCACGGCTTTTCTGCCATGCGGTTCATTTCGGCAGTGGAGCCCCTGCGCGTGGCCAATCGTTTTCGTGGGCAGTTGTACCGGTGGCAGGTGCATTGCCTGGACGGTGAGGCGGTGCTGGCGAGcca                                                                                                                                                 >  4:378059/1‑147 (MQ=255)
     aCGATTGCCTTTCTGTTGGTGGCGGTCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATgg                                                                                                                                             <  3:378059/149‑1 (MQ=255)
         ttGCCTTTCTGTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATg                                                                                                                                         <  6:55131/149‑1 (MQ=255)
                   gTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAatg                                                                                                                               >  6:265859/1‑149 (MQ=255)
                    ttGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAatgc                                                                                                                              <  5:280641/149‑1 (MQ=255)
                       atgttgggCTTTTCTGCCATGGGGTTCATTTAGTCTGTGGTGCGACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCCGGCGAGCA‑ATGGCATGTCGATCAatgccga                                                                                                                           <  1:236577/143‑1 (MQ=255)
                        tGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCTTGTCGATCAatgccgat                                                                                                                          >  4:121050/1‑149 (MQ=255)
                        tGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGAt                                                                                                                                    <  1:55639/139‑1 (MQ=255)
                        tGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGAt                                                                                                                                    >  2:55639/1‑139 (MQ=255)
                        tGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAatgccgat                                                                                                                          >  6:73957/1‑149 (MQ=255)
                          cccGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCTGTTGTACCGGTGGCAGGTGCTTAGCGTGGCCGGTGAGGCGGTGCTGGCGAGCT‑ATGGCATGGCGATCAatgccgatgc                                                                                                                        >  6:204267/1‑149 (MQ=255)
                          cccGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTATCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAatgccgatgc                                                                                                                        >  7:341801/1‑149 (MQ=255)
                            ccgCTTTTCTGCCATGGGGAAAATTTCGGCAGTCGAGCCACTGCGGGTGGCCAATCGTTTTGGTGCGCAGTTGTACCGGTGGCAGGTGCTTAGCATGGACGGTGAGGCGGTTCTCGCGAGCA‑ATGGAATGTCGATCAatcccga                                                                                                                           >  2:236577/3‑144 (MQ=255)
                            cGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAatgccgatgccg                                                                                                                      >  3:139308/1‑149 (MQ=255)
                                ttttCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGa                                                                                                                                     >  2:327486/1‑130 (MQ=255)
                                ttttCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGa                                                                                                                                     <  1:327486/130‑1 (MQ=255)
                                   tgtGCCATTGGGTTCATTTCGGCAGTGGAGCCAGTGCGGGTGGCCAATCGTGTTGCTGGGCAGGTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTgg                                                                                                                <  8:277658/146‑1 (MQ=255)
                                                  aTTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGc                                                                                                >  6:329572/1‑149 (MQ=255)
                                                  aTTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGc                                                                                                >  5:162813/1‑149 (MQ=255)
                                                  aTTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGGGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGc                                                                                                <  5:329572/149‑1 (MQ=255)
                                                          aGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATcc                                                                                        >  7:24145/1‑149 (MQ=255)
                                                             ggAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCctgc                                                                                     >  5:77323/1‑149 (MQ=255)
                                                               aGCCACTTCGGGTTGCCTATCGTTTTGGTGGGCAGTTGTACCGGGGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCGGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCctgctg                                                                                   <  8:341801/149‑1 (MQ=255)
                                                                gCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCtgg                                                                                  <  6:77323/149‑1 (MQ=255)
                                                                  cACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCtggtg                                                                                <  5:265859/149‑1 (MQ=255)
                                                                                aaTCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCg                                                                   >  7:344552/1‑148 (MQ=255)
                                                                                  tCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCtggt                                                                                 >  6:334029/1‑132 (MQ=255)
                                                                                  tCGTTTTGGTGGGCAGTTGTACCGCTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCtggt                                                                                 <  5:334029/132‑1 (MQ=255)
                                                                                         ggtggGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTgg                                                          <  4:139308/148‑1 (MQ=255)
                                                                                          gtggGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCAGATGGCATGTCGATCAATTCCGATTCCGCCCTGGGGGAGGGCGAGCCGGCCAACATGCTGCTGGTGGTCGCGGGCTTCGAACCACTGGc                                                         >  1:309319/1‑149 (MQ=255)
                                                                                          gtggGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGc                                                         <  6:162813/148‑1 (MQ=255)
                                                                                             ggCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAAt                                                     >  2:319874/1‑149 (MQ=255)
                                                                                                              cAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAActgct                                    <  1:171562/149‑1 (MQ=255)
                                                                                                                ggTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACtgctgc                                  <  8:344552/149‑1 (MQ=255)
                                                                                                                  tGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCAt                                <  2:309319/149‑1 (MQ=255)
                                                                                                                   gCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCgg                                                                         <  1:350480/107‑1 (MQ=255)
                                                                                                                    cTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGc                              >  5:123572/1‑149 (MQ=255)
                                                                                                                    cTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGc                              <  8:24145/149‑1 (MQ=255)
                                                                                                                     ttAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCg                             >  1:232025/1‑149 (MQ=255)
                                                                                                                             gACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCg                     >  8:309592/1‑149 (MQ=255)
                                                                                                                                  tGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTc                 >  2:33598/1‑148 (MQ=255)
                                                                                                                                   gAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCaa               >  4:283418/1‑149 (MQ=255)
                                                                                                                                      gCGGTGCTGGTGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGtt                           >  4:196540/1‑134 (MQ=255)
                                                                                                                                      gCGGTGCTGGTGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGtt                           <  3:196540/134‑1 (MQ=255)
                                                                                                                                               gCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCAACCAc           <  6:118734/141‑1 (MQ=255)
                                                                                                                                               gCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCAACCAc           >  5:118734/1‑141 (MQ=255)
                                                                                                                                                cGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCAACCACGAAGCTGTc  <  6:123572/149‑1 (MQ=255)
                                                                                                                                                cGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTCCATGCGTTGCGCCGGCTCAACCACGAAGCTGTc  <  5:73957/149‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                     
TGGAGACGATTGCCTTTCTGTTGGTGCCCGGCTTTTCTGCCATGGGGTTCATTTCGGCAGTGGAGCCACTGCGGGTGGCCAATCGTTTTGGTGGGCAGTTGTACCGGTGGCAGGTGCTTAGCCTGGACGGTGAGGCGGTGCTGGCGAGCA‑ATGGCATGTCGATCAATGCCGATGCCGCCCTGGGGGAGGGCGAGCCGGCCAACATCCTGCTGGTGGTCGCGGGCTTCGAACCACTGGCCAATGTCGCACCCAAACTGCTGCATGCGTTGCGCCGGCTCAACCACGAAGCTGTC  >  NC_002947/365750‑366042

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑