Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 629,681 C→A 100% L84I (CTA→ATA)  USA300HOU_0564 → possible 3‑hexulose‑6‑phosphate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730629,6810CA100.0% 105.5 / ‑6.5 35L84I (CTA→ATA) USA300HOU_0564possible 3‑hexulose‑6‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base A (15/19);  total (15/20)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTTTACCAGCAGTTAAACATATGGCAGACAACATTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATACTAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGAACTAGATGAAATGGGTGCTGA  >  CP000730/629550‑629817
                                                                                                                                   |                                                                                                                                        
gTTTACCAGCAGTTAAACATATGGCAGACAACATTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTg                                                                                                                                 <  2:244498/141‑1 (MQ=255)
 tttACCAGCAGTTAAACATAGGGCAGACAACATTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGc                                                                                                                                <  2:26564/141‑1 (MQ=255)
   tACCAGCAGTTAAACATATGGCAGACAACATTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCag                                                                                                                              <  2:79277/141‑1 (MQ=255)
           gTTAAACATATGGCACACAACATAAGTAATTTAAAAGTATTAGAAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAACCAATTAAAGTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCa                                                                                                                      <  2:390387/141‑1 (MQ=255)
            ttAAACATATGACAGACAACATTAGTAATGTAAAAGTATTAGCAGAAATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGGTGCAGAAGATGCAt                                                                                                                     <  1:253926/141‑1 (MQ=255)
                      ggCAGACCACATTCGTAATGTAAAAGTATTAGCAGCCATGAAAAGTATCGATGCAGCTGATTATGAAGTTAGTCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAagc                                                                                                           <  2:445227/141‑1 (MQ=255)
                           acaacaTTAGGAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTa                                                                                                      >  1:335004/1‑141 (MQ=255)
                            aaacaTTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTAt                                                                                                     <  1:286117/140‑1 (MQ=255)
                              acaTTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTg                                                                                                   >  1:272628/1‑141 (MQ=255)
                               caTTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTga                                                                                                  >  1:35297/1‑141 (MQ=255)
                                         gTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCAt                                                                                        >  2:116416/1‑141 (MQ=255)
                                         gTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCAt                                                                                        >  2:109341/1‑141 (MQ=255)
                                                tATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAaata                                                                                 <  2:221962/141‑1 (MQ=255)
                                                   tAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAataata                                                                              <  1:109341/141‑1 (MQ=255)
                                                     gCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATaaa                                                                            >  1:71854/1‑141 (MQ=255)
                                                     gCAGACATGAAAATTATAGATGCAGCTGATTATGAAGCTAGCCAAGCAATTACATTTGTCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCGTCAATTATAGCAGCTATTGAAGAAGCTCATAAAAATAATaaa                                                                            >  2:338419/1‑141 (MQ=255)
                                                      cAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAAc                                                                           >  2:386316/1‑141 (MQ=255)
                                                             gAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACt                                                                    >  1:412542/1‑141 (MQ=255)
                                                                     taGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGata                                                            <  1:366070/141‑1 (MQ=255)
                                                                       aaTGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGTGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATg                                                          <  2:163127/140‑1 (MQ=255)
                                                                            aGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGc                                                     >  1:377740/1‑141 (MQ=255)
                                                                                gATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGtt                                                 <  2:65068/141‑1 (MQ=255)
                                                                                           taggcaaaaaaTTATATTTGGCGACCATTGAATTAAAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGa                                      <  2:115099/132‑1 (MQ=255)
                                                                                              ccAAGCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGaaaa                                   >  2:56130/1‑141 (MQ=255)
                                                                                                 aGCAATTAAAGTTGGGGCGGATGTAATTACAATAATAGGGGTAGCAGAAGATGAACCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACg                                <  1:39492/141‑1 (MQ=255)
                                                                                                  gCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGTTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGt                               <  2:316045/141‑1 (MQ=255)
                                                                                                  gCAATTAAATTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGt                               <  1:284221/141‑1 (MQ=255)
                                                                                                     aTTAAATTAGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCa                            <  2:300959/141‑1 (MQ=255)
                                                                                                      ttAAATTTGGCGCGGCTGTAATTACAATCATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATCATACACAATGACTAGTTGATATGATTGCTGTTCAAGATTAAGAAAAACGtcaaa                           >  2:18954/1‑137 (MQ=255)
                                                                                                        aaaTTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCaaaa                         <  1:375541/141‑1 (MQ=255)
                                                                                                          aTTTGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGa                       >  1:223658/1‑141 (MQ=255)
                                                                                                           tttGGCGCGGATGTAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAGAATAATAAACAATTACTAGTTGATATGATTACTGTTCAAGATTTAGAAAAACGTGCAAAAGaa                      >  1:312439/1‑141 (MQ=255)
                                                                                                               gcgaggctctgagtACAATTCTAGGTGTCGAGTAAAATGCATTAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGAACTAg                  <  1:216398/128‑1 (MQ=255)
                                                                                                                        tAATTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGAACTAGATGAAATgg         <  1:346114/141‑1 (MQ=255)
                                                                                                                         aaTTACAATAATAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAGAAGACATGGATGAAATggg        >  2:310702/1‑141 (MQ=255)
                                                                                                                               aataatAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGAACTAGATGAAATGGGTGCTGa  <  2:71854/141‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                        
GTTTACCAGCAGTTAAACATATGGCAGACAACATTAGTAATGTAAAAGTATTAGCAGACATGAAAATTATAGATGCAGCTGATTATGAAGTTAGCCAAGCAATTAAATTTGGCGCGGATGTAATTACAATACTAGGTGTTGCAGAAGATGCATCAATTAAAGCAGCTATTGAAGAAGCTCATAAAAATAATAAACAATTACTAGTTGATATGATTGCTGTTCAAGATTTAGAAAAACGTGCAAAAGAACTAGATGAAATGGGTGCTGA  >  CP000730/629550‑629817

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: