Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,205,640 G→A 7.7% P41L (CCC→CTC)  PP_1057 ← PadR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,205,6400GA 7.7% 151.3 / 2.1 52P41L (CCC→CTC) PP_1057PadR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (22/26);  new base A (2/2);  total (24/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.23e-01

AGGCGTTTGCTGCCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGATA  >  NC_002947/1205496‑1205788
                                                                                                                                                |                                                                                                                                                    
aGGCGTTTGCTGCCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGgctg                                                                                                                                                  <  1:46824/149‑1 (MQ=255)
       tgctgcCTTGTACCTGGCCTCTGAGCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGc                                                                                                                                            <  3:282001/148‑1 (MQ=255)
         ctgcCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCgg                                                                                                                                                      >  1:266286/1‑136 (MQ=255)
         ctgcCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCgg                                                                                                                                                      <  2:266286/136‑1 (MQ=255)
         ctgcCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAg                                                                                                                                         <  3:174866/149‑1 (MQ=255)
          tgcCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAg                                                                                                                                         >  7:271397/1‑148 (MQ=255)
            ccTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGAGCAGCCCGGCCacgg                                                                                                                                       <  7:328443/148‑4 (MQ=255)
                   ccTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAg                                                                                                                                <  8:72631/148‑1 (MQ=255)
                    cTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCa                                                                                                                              <  7:208457/149‑1 (MQ=255)
                       gCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCTGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATc                                                                                                                            <  7:127283/148‑1 (MQ=255)
                        ccGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATcag                                                                                                                          <  7:69319/149‑1 (MQ=255)
                           cTGATCAGTTCCGCCTCTTCAAGGAAGTTCAGCCTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCCTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATcaccac                                                                                                                       >  7:171672/1‑148 (MQ=255)
                                   ttCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGc                                                                                                                               >  6:91189/1‑133 (MQ=255)
                                   ttCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGc                                                                                                                               <  5:91189/133‑1 (MQ=255)
                                   ttCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTATAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGt                                                                                                               >  1:272421/1‑149 (MQ=255)
                                         gtgttacaGGAAGTTGCGGGTGGGGTAGAGCACTCCTGGGCTTGGGCTGTAGCTGCCGGCGAACAGATTTTCGATCTGGCGGAGCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCg                                                                                                         <  8:171672/142‑1 (MQ=255)
                                         ctctTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCg                                                                                                         >  6:29830/1‑149 (MQ=255)
                                            ttCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCgggg                                                                                                      <  2:74044/149‑1 (MQ=255)
                                                 ggAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCAt                                                                                                                             >  2:176979/1‑121 (MQ=255)
                                                     gTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGacac                                                                                             <  2:272421/149‑1 (MQ=255)
                                                        cAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACAcgc                                                                                           <  5:29830/148‑1 (MQ=255)
                                                           cGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCgggg                                                                                                      <  2:344347/134‑1 (MQ=255)
                                                           cGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCgggg                                                                                                      >  1:344347/1‑134 (MQ=255)
                                                                          tCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcggg                                                                        >  4:234251/1‑149 (MQ=255)
                                                                          tCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcggg                                                                        >  4:282200/1‑149 (MQ=255)
                                                                                  ttGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGgcgc                                                                <  4:107716/149‑1 (MQ=255)
                                                                                  gcgggCTGCAGCTGCCCGCGACCAGATTGTCGAGCTGGCGGATCAGGTCGTCCCCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGCGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGgcgc                                                                <  4:211952/147‑1 (MQ=255)
                                                                                             cTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcgggcggg                                                                    >  6:71173/1‑134 (MQ=255)
                                                                                             cTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcgggcggg                                                                    <  5:71173/134‑1 (MQ=255)
                                                                                              tGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGa                                                    >  5:16631/1‑149 (MQ=255)
                                                                                              tGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGa                                                    >  1:43796/1‑149 (MQ=255)
                                                                                                ccGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGAt                                                   >  8:298960/1‑148 (MQ=255)
                                                                                                     gAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAg                                             <  3:282200/149‑1 (MQ=255)
                                                                                                     gAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAg                                             <  3:234251/149‑1 (MQ=255)
                                                                                                        cAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAgggg                                          <  8:271397/149‑1 (MQ=255)
                                                                                                         aGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTTGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAggggg                                         <  1:118787/149‑1 (MQ=255)
                                                                                                         aGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAggggg                                         <  2:60604/149‑1 (MQ=255)
                                                                                                           aTTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAg                                             >  5:316776/1‑143 (MQ=255)
                                                                                                           aTTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAg                                             <  6:316776/143‑1 (MQ=255)
                                                                                                                 gATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACAcgc                                                                                           >  5:255627/1‑91 (MQ=255)
                                                                                                                 gATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACAcgc                                                                                           <  6:255627/91‑1 (MQ=255)
                                                                                                                  aTCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgcg                                >  2:175720/1‑149 (MQ=255)
                                                                                                                  aTCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgcg                                >  1:178436/1‑149 (MQ=255)
                                                                                                                     tGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTCGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCa                              >  4:136133/1‑148 (MQ=255)
                                                                                                                          gATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCataggga                        <  2:178436/149‑1 (MQ=255)
                                                                                                                                gTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCatagggataggg                   >  8:248303/1‑148 (MQ=255)
                                                                                                                                gTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGc                  >  6:119665/1‑149 (MQ=255)
                                                                                                                                    tAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCcg              >  5:320096/1‑149 (MQ=255)
                                                                                                                                      ttgctGGCCGAGCAGCCCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCcgtc            >  3:338987/5‑149 (MQ=255)
                                                                                                                                       ccGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgc                                 <  2:138653/127‑1 (MQ=255)
                                                                                                                                       ccGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgc                                 >  1:138653/1‑127 (MQ=255)
                                                                                                                                        gctGGCCGAGCAGCCCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgc                                 >  7:63894/3‑126 (MQ=255)
                                                                                                                                        gctGGCCGAGCAGCCCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgc                                 <  8:63894/124‑1 (MQ=255)
                                                                                                                                             ccGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCg     <  1:175720/149‑1 (MQ=255)
                                                                                                                                                ggCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTCGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGata  <  3:136133/149‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                    
AGGCGTTTGCTGCCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGATA  >  NC_002947/1205496‑1205788

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑