Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,115,714 C→A 9.3% R24R (CGG→CGT)  PP_4500 ← TrpH family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,115,7140CA 9.3% 154.4 / 3.5 52R24R (CGG→CGT) PP_4500TrpH family protein
Reads supporting (aligned to +/- strand):  ref base C (21/26);  new base A (2/3);  total (23/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGATGGTCGCGCCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCTGCCATTGTGAAACAA  >  NC_002947/5115566‑5115861
                                                                                                                                                     |                                                                                                                                                   
ggatggTCGCGCCGCCCCACGTGCAGGACAGCACCACCCCGCTCACCCAGCGCATACCCACGTCAACGCAGGCC‑AGGCGCGCTTCGGGCAGGCCTTCGAGGCTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCCACCACATGAGcc                                                                                                                                                     >  4:60152/1‑149 (MQ=255)
  atggTCGCGCCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCg                                                                                                                                                   >  3:169168/1‑149 (MQ=255)
       cgcgCCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAAGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGGGCTCATGAGCACggggtg                                                                                                                                              >  4:47507/1‑146 (MQ=255)
        gcgcCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCAAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAAc                                                                                                                                             <  2:195836/149‑1 (MQ=255)
        gcgcCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAAGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGGGCTCATGAGCACggggtgc                                                                                                                                             <  3:47507/149‑5 (MQ=255)
                 cACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCg                                                                                                                                     >  2:174910/1‑148 (MQ=255)
                  aCGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGaa                                                                                                                                   <  2:29471/149‑1 (MQ=255)
                        aGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGa                                                                                                                              >  1:98500/1‑148 (MQ=255)
                          gACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCCGTGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGTGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGa                                                                                                                              >  1:237410/1‑147 (MQ=255)
                            cAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAgg                                                                                                                                 >  4:188480/1‑141 (MQ=255)
                            cAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAgg                                                                                                                                 <  3:188480/141‑1 (MQ=255)
                             aGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGgc                                                                                                                        <  5:226524/149‑1 (MQ=255)
                               cTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGgcgc                                                                                                                      <  1:174910/149‑1 (MQ=255)
                                  cACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGt                                                                                                                   >  5:308078/1‑149 (MQ=255)
                                    ccccGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCg                                                                                                                 >  1:200989/1‑149 (MQ=255)
                                       cGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGTGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAg                                                                                                              <  2:237410/149‑1 (MQ=255)
                                       cGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAg                                                                                                              <  7:37047/149‑1 (MQ=255)
                                             cccAGAGCATACCCAGGTCAACGCAGTCC‑TGGCGCGCTTCGTGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGTCGCCGTCGGAGGCCGTg                                                                                                        <  2:108935/149‑1 (MQ=255)
                                              ccAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAAc                                                                                                                                             <  8:226618/111‑1 (MQ=255)
                                              ccAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAAc                                                                                                                                             >  7:226618/1‑111 (MQ=255)
                                                aGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCtg                                                                                                     <  2:98500/149‑1 (MQ=255)
                                                         ccAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTg                                                                                             >  5:30350/1‑148 (MQ=255)
                                                         ccAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTg                                                                                             >  6:98155/1‑148 (MQ=255)
                                                                aaCGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCTCCGTCGGAGGCCCTGCTCTGACAGTGCAGATCaa                                                                                     >  8:53549/1‑149 (MQ=255)
                                                                 aCGCAGGCG‑GGGCGCGCTTCGGGCAGGCCTTCGAGGGTTTGATGGTCGGTCAGTGCCAGCGCTTGGACCCCGTGCTCATGAGCACGGGCATCCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGAGCAAc                                                                                    <  8:6087/149‑1 (MQ=255)
                                                                 aCGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAAc                                                                                    <  8:102976/149‑1 (MQ=255)
                                                                  cGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACa                                                                                   >  4:211950/1‑149 (MQ=255)
                                                                   gCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACAt                                                                                  >  2:259623/1‑149 (MQ=255)
                                                                    cAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACAtt                                                                                 <  3:211950/149‑1 (MQ=255)
                                                                             gcgcgcTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATagag                                                                          <  5:98155/148‑1 (MQ=255)
                                                                              cgcgcTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAgagga                                                                        <  6:308078/149‑1 (MQ=255)
                                                                                  cTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGAGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAgcgc                                                                    >  2:148855/1‑149 (MQ=255)
                                                                                                  gAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGAGCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGAt                                                    <  6:315510/149‑1 (MQ=255)
                                                                                                    gggTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGAtgt                                                  <  1:259623/149‑1 (MQ=255)
                                                                                                         tCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCa                                                                               >  7:79914/1‑115 (MQ=255)
                                                                                                         tCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCa                                                                               <  8:79914/115‑1 (MQ=255)
                                                                                                           attgtcggtcAGTGACTGCGCTTTCACCACGTGCTCATTAGCCCGGTCAACCTGTACCGAATGCGACAGTGAGCCGTCTTAGGCCGTGCTGTGACATTGCAGATCAACATTCATAGATTAGCGCTTTCGCTGGATTCGATGTTTGtta                                            <  5:321542/145‑1 (MQ=255)
                                                                                                                cggtcAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGttatt                                          >  2:86550/1‑145 (MQ=255)
                                                                                                                cggtcAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGttatt                                          <  1:86550/145‑1 (MQ=255)
                                                                                                                 ggtcAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGAtgttt                                                <  6:107929/138‑1 (MQ=255)
                                                                                                                 ggtcAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGAtgttt                                                >  5:107929/1‑138 (MQ=255)
                                                                                                                     aGTGCGAGCGGTTGGACCCGGTGGTCATGAGCCCGGTCAACCAGTACCGAAGGCGAGAGGGCGCCGTCGGAGGCCGTGGTGTGACAGTGCAGATCAACATTCATTGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTca                                 <  7:53549/149‑1 (MQ=255)
                                                                                                                                tggttgcccGGGCTCATGAGCACGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTc                      >  5:178762/7‑149 (MQ=255)
                                                                                                                                    aCCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGc                  >  1:137091/1‑149 (MQ=255)
                                                                                                                                    aCCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGc                  >  2:85279/1‑149 (MQ=255)
                                                                                                                                     ccccGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCt                 <  1:85279/149‑1 (MQ=255)
                                                                                                                                      cccGTGCGCAAGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCTg                <  3:60152/149‑1 (MQ=255)
                                                                                                                                           gCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAAGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATag                                                                            >  6:308836/1‑84 (MQ=255)
                                                                                                                                           gCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAAGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATag                                                                            <  5:308836/84‑1 (MQ=255)
                                                                                                                                             tCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATg                                       >  5:173825/1‑119 (MQ=255)
                                                                                                                                             tCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATg                                       <  6:173825/119‑1 (MQ=255)
                                                                                                                                                tGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCTGCCATTGTGaa      <  4:169168/149‑1 (MQ=255)
                                                                                                                                                tGAGCACGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCTGCCATTGTGaa      <  6:178762/149‑1 (MQ=255)
                                                                                                                                                    cccGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGAAGTTTGTTAGTATGCCGTCACATCCCGATTCTGGCTGCCATTGTGAAACaa  >  7:15566/1‑149 (MQ=255)
                                                                                                                                                     |                                                                                                                                                   
GGATGGTCGCGCCGCCCCACGTGCAGGACAGCTCCACCCCGCTGACCCAGCGCATACCCAGGTCAACGCAGGCC‑TGGCGCGCTTCGGGCAGGCCTTCGAGGGTGTCATGGTCGGTCAGTGCCAGCGCTTGCACCCCGTGCTCATGAGCCCGGGCAACCAGTACCGAAGGCGACAGGGCGCCGTCGGAGGCCGTGCTGTGACAGTGCAGATCAACATTCATAGAGGAGCGCTTTCGCTGGATTCGATGTTTGTTATTATGCCGTCACATCCCGATTCTGGCTGCCATTGTGAAACAA  >  NC_002947/5115566‑5115861

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: ‑