Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,399,802 A→G 7.3% L205L (CTA→CTG)  PP_4743 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,399,8020AG 7.3% 150.2 / 3.1 56L205L (CTA→CTG) PP_4743hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (26/25);  new base G (2/2);  total (28/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.51e-01

CTAATTTTAGTGATGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTAGTCAATAAAGTCAATAAAG  >  NC_002947/5399657‑5399944
                                                                                                                                                 |                                                                                                                                              
cTAATTTTAGTGATGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTa                                                                                                                                                >  7:267266/1‑146 (MQ=255)
    ttttAGTGATGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCTGATTCATTCATACATACCGAATGGCAGTTTGAATTCCCGAAGAAAGTACTAGATATCa                                                                                                                                         >  2:258757/1‑149 (MQ=255)
      ttAGTGATGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCAc                                                                                                                                        <  1:335882/148‑1 (MQ=255)
      ttAGTGATGGTCAGTTCCAGTAGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGATAGACGAGCCGGATTCATTCCTACATCCCGAATGTCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCAc                                                                                                                                        <  1:258757/148‑1 (MQ=255)
             tGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCa                                                                                                                                 <  5:3930/148‑1 (MQ=255)
                            ggTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCTAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAAc                                                                                                                  <  3:281041/148‑1 (MQ=255)
                                  cATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   <  6:210536/141‑1 (MQ=255)
                                  cATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   >  5:210536/1‑141 (MQ=255)
                                  cATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATAc                                                                                                           <  8:267266/149‑1 (MQ=255)
                                      tATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       <  4:315263/149‑1 (MQ=255)
                                      tATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       >  3:315263/1‑149 (MQ=255)
                                           cATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAg                                                                                                    >  2:232032/1‑147 (MQ=255)
                                                     ttATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGc                                                                                        >  5:39726/1‑149 (MQ=255)
                                                       aTTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGc                                                                                                                               >  4:231628/1‑108 (MQ=255)
                                                       aTTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGc                                                                                                                               <  3:231628/108‑1 (MQ=255)
                                                           aaaGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGAc                                                                                  >  7:74711/1‑149 (MQ=255)
                                                            aaGACAGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCATACATACAGAATGGAAGTTTGAATTCACGAAGCAAGTACTAGAGATCACTGATCCAGCGGCTAAAAGCAACCACATACTAAACAGAAGCCATAGTGCTTCGag                                                                                  >  8:163201/1‑147 (MQ=255)
                                                                 cGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       >  4:308109/1‑122 (MQ=255)
                                                                 cGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       <  3:308109/122‑1 (MQ=255)
                                                                 cGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGAc                                                                                  <  6:313995/143‑1 (MQ=255)
                                                                 cGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGAc                                                                                  >  5:313995/1‑143 (MQ=255)
                                                                        gTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTGGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   >  2:81604/1‑103 (MQ=255)
                                                                        gTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTGGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   >  2:76706/1‑103 (MQ=255)
                                                                        gTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTGGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   <  1:81604/103‑1 (MQ=255)
                                                                        gTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTGGAGATCACTGATGCAGCGGCTAAAAGCaa                                                                                                                   <  1:76706/103‑1 (MQ=255)
                                                                              cTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCa                                                                                              >  7:146197/1‑118 (MQ=255)
                                                                              cTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCa                                                                                              <  8:146197/118‑1 (MQ=255)
                                                                               tttGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGAAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGaa                                                               >  4:280907/1‑148 (MQ=255)
                                                                                      gACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       >  7:72309/1‑101 (MQ=255)
                                                                                      gACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAAt                                                                                                       <  8:72309/101‑1 (MQ=255)
                                                                                               gATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTAtt                                              >  1:239736/1‑149 (MQ=255)
                                                                                                attcattcCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTc                                             >  2:336265/1‑149 (MQ=255)
                                                                                                     ttcCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGaaaa                                                             <  7:226208/128‑1 (MQ=255)
                                                                                                     ttcCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGaaaa                                                             >  8:226208/1‑128 (MQ=255)
                                                                                                     atcCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTTATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAg                                                                                           <  6:234341/97‑1 (MQ=255)
                                                                                                             tCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCtca                                                        >  4:3207/1‑125 (MQ=255)
                                                                                                             tCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCtca                                                        <  3:3207/125‑1 (MQ=255)
                                                                                                               cgataTGTCAGTTTTAATTCCCTAATCAAGTACTAGATATCACTTATGCAGCGTCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacga                               <  3:221315/144‑1 (MQ=255)
                                                                                                                   aTGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacga                               >  7:285787/1‑144 (MQ=255)
                                                                                                                   aTGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacga                               <  8:285787/144‑1 (MQ=255)
                                                                                                                      gCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacga                               >  6:182869/1‑141 (MQ=255)
                                                                                                                      gCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacga                               <  5:182869/141‑1 (MQ=255)
                                                                                                                      gCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTg                       >  5:363332/1‑149 (MQ=255)
                                                                                                                      gCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCAAGACTGCAAACGAAAACCTCATCAACTTATTAGAGCTCCAagaaga                               >  4:221315/1‑141 (MQ=255)
                                                                                                                        aGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTa                     <  1:232032/149‑1 (MQ=255)
                                                                                                                                  cccGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAAGTTATTCGAGCTCCTAGCCGACAAGATTGTagtcattaaag           >  4:106369/1‑149 (MQ=255)
                                                                                                                                  cccGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTagtcaataaag           >  2:302277/1‑149 (MQ=255)
                                                                                                                                   ccGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAAc                                                   <  1:158686/108‑1 (MQ=255)
                                                                                                                                   ccGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAAc                                                   >  2:158686/1‑108 (MQ=255)
                                                                                                                                        tcAAGTACTTCAGATCACTGTTGCTGCTGATAAAATGAACCAAATACTAATGAGTAGCCATAGTTCTTCGACCATCAAGAATGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTagtcaataaagtcaat      <  7:163201/147‑1 (MQ=255)
                                                                                                                                           aGTACTAGAGATCACTGATTCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTAGtcaataaagtcaataaag  <  2:239736/149‑1 (MQ=255)
                                                                                                                                           aGTACTAGAGATCACTGATGCAGCGTCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTAGtcaataaagtcaataaag  <  1:336265/149‑1 (MQ=255)
                                                                                                                                              aCTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTa                     <  3:309840/127‑1 (MQ=255)
                                                                                                                                              aCTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTa                     >  4:309840/1‑127 (MQ=255)
                                                                                                                                                tAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAgacgac                              <  6:215790/116‑1 (MQ=255)
                                                                                                                                                tAGAGATCACCGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTg                       <  3:113971/123‑1 (MQ=255)
                                                                                                                                                tAGAGATCACCGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTg                       >  4:113971/1‑123 (MQ=255)
                                                                                                                                                 |                                                                                                                                              
CTAATTTTAGTGATGGTCAGTTCCAGTCGGTCTACATCTATTCCATCGTCGAGTTATTCAAAGACCGAAATTGTCTAACTTTGCTAGACGAGCCGGATTCATTCCTACATCCCGAATGGCAGTTTGAATTCCCGAAGCAAGTACTAGAGATCACTGATGCAGCGGCTAAAAGCAACCACATACTAATGAGTAGCCATAGTGCTTCGACCATCACGACTGCAAACGAAAACCTCATCAACTTATTCGAGCTCCAAGACGACAAGATTGTAGTCAATAAAGTCAATAAAG  >  NC_002947/5399657‑5399944

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: ‑