Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,186,138 A→T 8.9% intergenic (+48/‑49) yqiG → / → insC1 pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein/IS2 repressor TnpA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,186,1380AT 8.9% 145.8 / 5.5 45intergenic (+48/‑49)yqiG/insC1pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein/IS2 repressor TnpA
Reads supporting (aligned to +/- strand):  ref base A (24/17);  new base T (2/2);  total (26/19)
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

ACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAA  >  NC_000913/3186001‑3186239
                                                                                                                                         |                                                                                                     
aCGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTATTTAAGTGATa                                                                                              >  1:148004/1‑147 (MQ=255)
aCGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTATTTAAGTGATa                                                                                              <  2:148004/147‑1 (MQ=255)
                   aTCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTaa                                                                                       <  1:1347473/135‑1 (MQ=255)
                   aTCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTaa                                                                                       >  2:1347473/1‑135 (MQ=255)
                               aaaaaTTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaaa                                                                                                       <  4:977540/107‑1 (MQ=255)
                               aaaaaTTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaaa                                                                                                       >  3:977540/1‑107 (MQ=255)
                                aaaattaaaattAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                                                                                  >  3:798276/1‑127 (MQ=255)
                                aaaattaaaattAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                                                                                  <  4:798276/127‑1 (MQ=255)
                                    ttaaaattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTg                                                               >  1:467297/1‑142 (MQ=255)
                                    ttaaaattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTg                                                               <  2:467297/142‑1 (MQ=255)
                                        aattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaaa                                                                                                       <  4:117261/98‑1 (MQ=255)
                                        aattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaaa                                                                                                       >  3:117261/1‑98 (MQ=255)
                                             aCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTa                                                                           <  1:356206/121‑1 (MQ=255)
                                             aCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTa                                                                           >  2:356206/1‑121 (MQ=255)
                                               cacaATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTATTTAAGTGAt                                                                                               >  3:642358/1‑99 (MQ=255)
                                               cacaATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTATTTAAGTGAt                                                                                               <  4:642358/99‑1 (MQ=255)
                                                acaATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGa                                                                         <  3:435036/120‑1 (MQ=255)
                                                acaATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGa                                                                         >  4:435036/1‑120 (MQ=255)
                                                  aaTAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGt                                                                                                  <  4:19909/93‑1 (MQ=255)
                                                  aaTAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGt                                                                                                  >  3:19909/1‑93 (MQ=255)
                                                                ttAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCAtt                                                                <  4:682884/113‑1 (MQ=255)
                                                                ttAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCAtt                                                                >  3:682884/1‑113 (MQ=255)
                                                                    aaaTATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCa                        >  1:597612/1‑149 (MQ=255)
                                                                       tatttattGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTa                                                                           >  2:156760/1‑95 (MQ=255)
                                                                       tatttattGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTa                                                                           <  1:156760/95‑1 (MQ=255)
                                                                               gTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCgg                                 <  4:1417048/129‑1 (MQ=255)
                                                                               gTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCgg                                 >  3:1417048/1‑129 (MQ=255)
                                                                               gTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGACGTCTTAGGGCCGGAGAAACGCAGACGGCGTAcc             >  4:720450/1‑149 (MQ=255)
                                                                                ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATa                                                                                              >  4:819233/1‑67 (MQ=255)
                                                                                ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATa                                                                                              <  3:819233/67‑1 (MQ=255)
                                                                                ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAAc                                                         <  4:441479/104‑1 (MQ=255)
                                                                                ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAAc                                                         >  3:441479/1‑104 (MQ=255)
                                                                                ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACca            >  3:619054/1‑149 (MQ=40)
                                                                                  cATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGga                                                             >  2:754511/1‑98 (MQ=255)
                                                                                  cATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGga                                                             <  1:754511/98‑1 (MQ=255)
                                                                                  cATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACcaca          >  2:726299/1‑149 (MQ=39)
                                                                                   aTTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACcacac         >  4:287771/1‑149 (MQ=38)
                                                                                   aTTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACcacac         >  2:1103136/1‑149 (MQ=38)
                                                                                     tATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg       >  3:935753/1‑149 (MQ=37)
                                                                                     tATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg       >  2:458576/1‑149 (MQ=37)
                                                                                     tATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGACGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg       <  3:720450/149‑1 (MQ=37)
                                                                                       tCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGa     >  3:1292406/1‑149 (MQ=35)
                                                                                          gTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGaaa                            <  2:398287/123‑1 (MQ=33)
                                                                                          gTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGaaa                            >  1:398287/1‑123 (MQ=33)
                                                                                          gTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGaaaa  <  1:726299/149‑1 (MQ=32)
                                                                                           ttattaGACTGGCCCCCTGATTCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCtt                                         <  4:740326/109‑1 (MQ=17)
                                                                                           ttattaGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCtt                                         >  3:740326/1‑109 (MQ=32)
                                                                                           ttattaGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg       <  2:601611/143‑1 (MQ=32)
                                                                                           ttattaGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg       >  1:601611/1‑143 (MQ=32)
                                                                                                                                         |                                                                                                     
ACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAA  >  NC_000913/3186001‑3186239

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: