Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,205,646 T→C 7.7% E39G (GAG→GGG)  PP_1057 ← PadR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,205,6460TC 7.7% 139.4 / 3.1 52E39G (GAG→GGG) PP_1057PadR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (22/26);  new base C (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 = 5.82e-01

TGCTGCCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGATATAT  >  NC_002947/1205503‑1205791
                                                                                                                                               |                                                                                                                                                 
tgctgcCTTGTACCTGGCCTCTGAGCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGc                                                                                                                                               <  3:282001/148‑1 (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                                                                                                                                  <  5:91189/133‑1 (MQ=255)
                            ttCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGc                                                                                                                                  >  6:91189/1‑133 (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                                                                           >  4:282200/1‑149 (MQ=255)
                                                                   tCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcggg                                                                           >  4:234251/1‑149 (MQ=255)
                                                                           ttGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGgcgc                                                                   <  4:107716/149‑1 (MQ=255)
                                                                           gcgggCTGCAGCTGCCCGCGACCAGATTGTCGAGCTGGCGGATCAGGTCGTCCCCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGCGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGgcgc                                                                   <  4:211952/147‑1 (MQ=255)
                                                                                      cTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcgggcggg                                                                       <  5:71173/134‑1 (MQ=255)
                                                                                      cTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCAcgggcggg                                                                       >  6:71173/1‑134 (MQ=255)
                                                                                       tGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGa                                                       >  1:43796/1‑149 (MQ=255)
                                                                                       tGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGa                                                       >  5:16631/1‑149 (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                                                                                              <  6:255627/91‑1 (MQ=255)
                                                                                                          gATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACAcgc                                                                                              >  5:255627/1‑91 (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                                    >  1:138653/1‑127 (MQ=255)
                                                                                                                                ccGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTcgc                                    <  2:138653/127‑1 (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)
                                                                                                                                            tgctCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGatatat  >  4:342737/1‑149 (MQ=255)
                                                                                                                                               |                                                                                                                                                 
TGCTGCCTTGTACCTGGCCGCTGATCAGTTCGGCCTCTTCAAGGAAGTTCAGCGTGGGGTAGATCACTCCAGGGCTTGGGCTGTAGCTGCCGTCGAACAGATTTTCGATCTGGCGGATCAGGTCGTAACCGTGGCCGGGCTGCTCGGCCAGCAAGTCCAGCATCAGCAGCTTGAGGTCACCCGGGGCGAAGACACGCGGGCCGCGCTCGCCACGGGCGGGGCGCCGCTCGAAGGGATCATGAGGGGGATGTTCGCGCATAGGGATAGGGCTCCGTCGTTTGCGATATAT  >  NC_002947/1205503‑1205791

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: ‑