Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_014034 2,995,659 +A 4.8% intergenic (+199/+21) RCAP_rcc02802 → / ← RCAP_rcc02803 membrane dipeptidase/hypothetical protein

Read alignment evidence...
  seq id position change freq score reads annotation genes product
*NC_0140342,995,6592.→A 4.8% 5.8 0.0 ‑0.563intergenic (+199/+21)RCAP_rcc02802/RCAP_rcc02803membrane dipeptidase/hypothetical protein
Reads supporting (aligned to +/- strand):  new base (3/0):  ref base (52/8):  total (55/8)
Fisher's exact test strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 3.14e-01

GCAACCCGTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAATT  >  NC_014034/2995568‑2995759
                                                                                              |                                                                                                     
gCAACCCGTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCCGGGCg                                                                                             >  1:94853/1‑101 (MQ=255)
 cAACCCGTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCggggggg                                                                                            >  1:4006701/1‑98 (MQ=255)
  aaCCCGTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGaa                                                                                           >  1:3498010/1‑101 (MQ=255)
       gTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATccc                                                                                      >  1:3112198/1‑101 (MQ=255)
         cggcggCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGGAATccccc                                                                                    >  2:1978130/1‑101 (MQ=255)
                   gcgcCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTccc                                                                          >  2:432538/1‑101 (MQ=255)
                        ttgtttttCCTTGGAAAAATACGCCCGGGGGGTGCGGGGGGCGGAGCCCCCCGCCGGGTCGCCTCGGCGTCAGCCGAGGCGAAATACCCC.CTCAGCccttc                                                                        >  2:1285997/5‑98 (MQ=0)
                            ttttCCTTGGAAAAATACGCCCGGGGGGTGCGGGGGGCGGAGCCCCCCGCCGGGTCGCCTCGGCGTCAGCCGAGGCGAAATACCCC.CTCAGCccttcatct                                                                    >  2:4195359/1‑94 (MQ=2)
                              ttCCTTGGAAAAATACGCCCGGGGGGTGCGGGGGGCGGAGCCCCCCGCCGGGTCGCCTCGGCGTCAGCCGAGGCGAAATACCCC.CTCAGCccttcatcttg                                                                  >  1:3319971/1‑92 (MQ=0)
                               tCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGa                                                              >  1:1538854/1‑101 (MQ=255)
                                  ttGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCt                                                           >  1:3327980/1‑101 (MQ=255)
                                        aaaatcccgcGGGGGGTTGGGGGGGCGGCCCCCCCCG.GGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAAc                                                      <  2:2242409/92‑1 (MQ=255)
                                                   gggggTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..TCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGCCAGAcg                                           >  1:3500114/1‑101 (MQ=255)
                                                   gggggTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCCCAGTCCCACAGACTTTCGACCCCGAACCCGGGCCGAcg                                           >  1:2880052/1‑101 (MQ=37)
                                                     gggTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGAcgcg                                         >  2:3208128/1‑101 (MQ=255)
                                                      ggTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCCGGTCAGAcgccg                                        >  1:1845/1‑99 (MQ=255)
                                                      ggTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCCGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGCCCTCGAACCGGGTCAGACGCgg                                        >  1:1341200/1‑101 (MQ=255)
                                                      ggTGCGCGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGGCAGACGGgg                                        >  2:122288/1‑101 (MQ=255)
                                                       gTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGa                                       >  2:2393342/1‑101 (MQ=255)
                                                        tGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGag                                      >  2:487477/1‑100 (MQ=255)
                                                        tGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGAt                                      >  1:738041/1‑101 (MQ=255)
                                                           ggggggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGGTgcg                                   >  2:2348761/1‑101 (MQ=255)
                                                            tctggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATgcgc                                  <  2:173741/98‑1 (MQ=255)
                                                            gggggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATgcgc                                  >  2:3238310/1‑101 (MQ=255)
                                                            gggggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATgcgc                                  >  1:266601/1‑101 (MQ=255)
                                                             gggggggccccccccG.CGGGTCGCCCCGGCTT..GCCGGTGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCa                                 <  1:622405/92‑1 (MQ=39)
                                                             ggggCGGAGCCCCCCG.CGGGTGGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCa                                 >  1:2410128/1‑101 (MQ=255)
                                                             ggggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATgcgcc                                 >  2:1454700/1‑100 (MQ=255)
                                                             ggggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGGCAGACGCGGATGCGCa                                 >  1:2978527/1‑101 (MQ=255)
                                                              gggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAg                                >  1:1990706/1‑101 (MQ=255)
                                                               ggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAgg                               >  2:3759665/1‑101 (MQ=255)
                                                               ggCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAga                               >  1:173779/1‑100 (MQ=255)
                                                               ggCCGAGCCCCCCG.CGGGGCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGGCCCAGACATTTCTGACCCCTAACCGGGCTGGACCCGGATGGGCCgg                               >  2:4122086/1‑101 (MQ=255)
                                                                 cGGAGCCCCCCG.CGGGTCGCCCCGGCTT..CCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCTACCTCGAACCGGGCCAGACGCGGATGCGCACGCg                             >  2:1085213/1‑101 (MQ=39)
                                                                  ggAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCgg                            >  1:3585038/1‑101 (MQ=255)
                                                                  ggAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCgg                            >  2:4169143/1‑101 (MQ=255)
                                                                   gAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCggg                           >  1:3963514/1‑101 (MQ=255)
                                                                   gAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCggg                           >  2:688071/1‑101 (MQ=255)
                                                                    aGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGc                          <  1:4230058/101‑1 (MQ=255)
                                                                     gCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGcc                         >  2:2848319/1‑101 (MQ=255)
                                                                      ccccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGGCg                        >  2:3940515/1‑101 (MQ=255)
                                                                      ccccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCg                        >  2:2225828/1‑101 (MQ=255)
                                                                      ccccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCg                        >  1:1644648/1‑101 (MQ=255)
                                                                       cccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGa                       >  1:3733842/1‑101 (MQ=255)
                                                                       cccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCCCCCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGAGGGGGCGGCGGGCCGa                       >  1:4098024/1‑101 (MQ=38)
                                                                        ccccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGaa                      <  1:3759922/101‑1 (MQ=255)
                                                                         cccG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGaaa                     >  2:807859/1‑101 (MQ=255)
                                                                            g.cgGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGcc                  >  1:166179/1‑101 (MQ=255)
                                                                            g.cgGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGcc                  >  2:289353/1‑101 (MQ=255)
                                                                               gggTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGc                <  1:122312/101‑1 (MQ=255)
                                                                                ggTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCa               >  1:1562814/1‑101 (MQ=255)
                                                                                ggTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCa               >  1:3135208/1‑101 (MQ=255)
                                                                                ggTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCa               >  1:2452518/1‑101 (MQ=255)
                                                                                 gTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCaa              <  2:3111967/101‑1 (MQ=255)
                                                                                  tCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAg             >  1:2147798/1‑101 (MQ=255)
                                                                                  tCGCCCCGGCTT..GCCGGGGCGAAACCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAg             <  2:2911935/101‑1 (MQ=255)
                                                                                   cGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAgg            >  2:1892352/1‑101 (MQ=255)
                                                                                   cGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAgg            >  2:598079/1‑101 (MQ=255)
                                                                                   cGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAgg            >  1:1911453/1‑101 (MQ=255)
                                                                                    gCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGc           >  2:2297651/1‑101 (MQ=255)
                                                                                     ccccGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCt          >  1:2324334/1‑101 (MQ=255)
                                                                                     ccccGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCt          >  1:2879182/1‑101 (MQ=255)
                                                                                       ccGGCTT..GCCGGGGCGAAATCCCTCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTgg        >  1:3404348/1‑101 (MQ=255)
                                                                                          gCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGa     <  2:3327739/101‑1 (MQ=255)
                                                                                           cTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGaa    >  2:2889313/1‑101 (MQ=255)
                                                                                           cTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGaa    >  1:1676127/1‑101 (MQ=255)
                                                                                           cTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGaa    >  1:391767/1‑101 (MQ=255)
                                                                                            tt..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAAt   >  2:1936543/1‑101 (MQ=255)
                                                                                             t..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAAtt  >  1:4131419/1‑101 (MQ=255)
                                                                                             t..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAAtt  >  2:2268236/1‑101 (MQ=255)
                                                                                             t..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAAtt  >  1:1329912/1‑101 (MQ=255)
                                                                                              |                                                                                                     
GCAACCCGTCGGCGGCCCAGCGCCCTGCTTTTCCTTGGCAAAATACG.CCGGGGGGTGCGGGGGGCGGAGCCCCCCG.CGGGTCGCCCCGGCTT..GCCGGGGCGAAATCCCCCGCTCAGTCCCAGAGACTTTCGACCTCGAACCGGGTCAGACGCGGATGCGCAGGCGGGCCGAAAGCCGCAAGGCTGGCGAATT  >  NC_014034/2995568‑2995759

Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 31 ≤  ATCG  < 39 ≤  ATCG