Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,233,504 T→A 100% V470D (GTT→GAT)  USA300HOU_1157 → non‑specific serine/threonine protein kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,233,5040TA100.0% 198.9 / NA 61V470D (GTT→GAT) USA300HOU_1157non‑specific serine/threonine protein kinase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (27/34);  total (27/34)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTT  >  CP000730/1233369‑1233637
                                                                                                                                       |                                                                                                                                     
gTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGa                                                                                                                                  >  2:641092/1‑141 (MQ=255)
  gAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGAtt                                                                                                                                <  1:641428/141‑1 (MQ=255)
       tgtTGAACGTGGTGACAGTGTTGAGGTTGTTAGATCAGAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGaata                                                                                                                           >  2:417522/1‑139 (MQ=255)
        gtTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTGAGGTCTTAAAGATGATACGATTGaaaaa                                                                                                                          >  1:600409/1‑141 (MQ=255)
         ttGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAg                                                                                                                         >  2:645660/1‑141 (MQ=255)
            aaCGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCCTGCAGAAATTAAAATCGTTCGGTCTTAAAGATGATACGATTGAAAAAGtat                                                                                                                      <  1:664293/141‑1 (MQ=255)
                tggtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTACAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATataa                                                                                                                  >  1:614439/1‑141 (MQ=255)
                gagtgAAAGTGTTGATGGTGTTCTATCAAAGGGCCCTGAAAAGGTTAAAGTGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATCCGATTGAAAAAGTATataa                                                                                                                  <  1:78155/139‑1 (MQ=255)
                  gtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATataata                                                                                                                <  1:660145/141‑1 (MQ=255)
                     aCAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATc                                                                                                             <  2:140052/141‑1 (MQ=255)
                     aCAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATc                                                                                                             >  1:283803/1‑141 (MQ=255)
                           ttGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAgcgc                                                                                                       <  1:424671/141‑1 (MQ=255)
                               tgttgaTAGATCGAAGAGCACTGTAGAGTGCAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCaaa                                                                                                   <  2:215534/141‑1 (MQ=255)
                                         tCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACAtt                                                                                         >  2:357876/1‑141 (MQ=255)
                                            aaGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCa                                                                                      >  2:801177/1‑141 (MQ=255)
                                            aaGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCa                                                                                      <  1:439/141‑1 (MQ=255)
                                                gCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATc                                                                                  >  2:364444/1‑141 (MQ=255)
                                                 cccTGAAAATGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAAtaa                                                                                 >  2:557149/1‑139 (MQ=255)
                                                 cccTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCa                                                                                 >  2:82631/1‑141 (MQ=255)
                                                  ccTGAAAAGGTTAAAATGCCTAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCaa                                                                                <  2:646451/141‑1 (MQ=255)
                                                  ccTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCaa                                                                                >  1:568678/1‑141 (MQ=255)
                                                  acTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATaaa                                                                                >  2:20196/2‑141 (MQ=255)
                                                   cTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCaaa                                                                               >  2:188533/1‑141 (MQ=255)
                                                      aaaaGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAgtg                                                                            <  1:375589/141‑1 (MQ=255)
                                                       aaaGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAgtgt                                                                           <  1:674057/141‑1 (MQ=255)
                                                              aaaaTGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACCTTGCAAATCAAAGTGTAACCGCa                                                                    >  1:826820/1‑141 (MQ=255)
                                                                aaggCCAAATGCCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCaaa                                                                  <  1:651016/138‑1 (MQ=255)
                                                                   gCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATAc                                                               <  1:70280/141‑1 (MQ=255)
                                                                    ccAAATGTCATTGGTTTACCTAAGGAGGAAGCCAAGCAGTAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACt                                                              <  1:667898/141‑1 (MQ=255)
                                                                        aTGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGaaa                                                          >  2:809628/1‑141 (MQ=255)
                                                                         tGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCGTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAAt                                                         >  2:353915/1‑141 (MQ=255)
                                                                          gTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATc                                                        <  1:477967/141‑1 (MQ=255)
                                                                          gTCATTGGGTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATc                                                        <  1:621713/141‑1 (MQ=255)
                                                                           tCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGCTACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCg                                                       <  2:563227/141‑1 (MQ=255)
                                                                            cATTGGTTTACCTAATGAGGAAGCCTTGCAGAAATTAGAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAGAAGGATACATTGCAAATCAAAGTGTAACCGCAATTACTGAACTCGc                                                      <  1:610649/141‑1 (MQ=255)
                                                                            cATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGc                                                      >  2:858160/1‑141 (MQ=255)
                                                                              ttGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAATATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTa                                                    <  1:492311/141‑1 (MQ=255)
                                                                               tGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGATaa                                                   >  2:706903/1‑140 (MQ=255)
                                                                                  tttACCTCAGGAGGAAGCCATGCAGCAATTACAATCGTTCGGTTTCCAGGATGATACGATTGAAAAAAAATTTTGTTAGCACGCGACGTAAGTAGACATCGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCa                                                <  1:855826/141‑1 (MQ=255)
                                                                                  tttACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCa                                                <  2:719891/141‑1 (MQ=255)
                                                                                  tttAACTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTATCCGCAAATACTGTAATCGCGATTCa                                                <  2:330430/141‑1 (MQ=255)
                                                                                       cTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAACTCAATGTGTAACCGCAAATACTGAAATCGCTATTCATGAtt                                           <  1:770861/141‑1 (MQ=255)
                                                                                       cTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGAtt                                           <  1:302624/141‑1 (MQ=255)
                                                                                        tAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGGTTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATGGCTATTCATGAttt                                          >  1:284585/1‑140 (MQ=255)
                                                                                            gaggaAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAat                                      >  2:309817/1‑141 (MQ=255)
                                                                                                 aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                 <  1:614466/141‑1 (MQ=255)
                                                                                                 aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                 >  1:272704/1‑141 (MQ=255)
                                                                                                 aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                 >  2:464726/1‑141 (MQ=255)
                                                                                                   ccTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTACCCGCACATCCTGAAATCGCTATTCATGATTCTAATATTAAAc                               >  1:159326/1‑141 (MQ=255)
                                                                                                     ttGCAGAAATTAAAATCGTTAGGTCTTAAAGATGAAACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACta                             <  1:364444/141‑1 (MQ=255)
                                                                                                      ttcAGAAATTAAAATCGTGAGGTCTCAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACCTTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACtat                            <  1:820423/139‑1 (MQ=255)
                                                                                                      tGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACtat                            <  1:453871/141‑1 (MQ=255)
                                                                                                        cAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTatat                          <  1:188533/141‑1 (MQ=255)
                                                                                                          aaaaTTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGa                        <  1:269530/140‑1 (MQ=255)
                                                                                                           aaaTTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGaa                       <  2:272704/141‑1 (MQ=255)
                                                                                                             aTTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATc                     <  1:366523/141‑1 (MQ=255)
                                                                                                               tAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCtt                   >  1:509706/1‑141 (MQ=255)
                                                                                                                           gTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAAATATATGAATCTTTAGGCATTAAga       >  2:639115/1‑140 (MQ=255)
                                                                                                                           gTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATAATGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGc       >  1:451665/1‑141 (MQ=255)
                                                                                                                              ttAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTACACCATACTATGCTTTAGGCATTAAGCAAg    <  2:614439/141‑1 (MQ=255)
                                                                                                                                aaaGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAGGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGtt  <  1:52803/141‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                     
GTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTT  >  CP000730/1233369‑1233637

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: