Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,010,363 C→T 100% C146Y (TGT→TAT)  USA300HOU_1861 ← ABC superfamily ATP binding cassette transporter, membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,010,3630CT100.0% 174.3 / ‑6.5 60C146Y (TGT→TAT) USA300HOU_1861ABC superfamily ATP binding cassette transporter, membrane protein
Reads supporting (aligned to +/- strand):  ref base C (0/1);  major base T (28/30);  minor base G (0/1);  total (28/32)
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.

TTTCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATGGTT  >  CP000730/2010226‑2010496
                                                                                                                                         |                                                                                                                                      
tttCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATaa                                                                                                                                      >  2:39442/1‑140 (MQ=255)
         tCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCaa                                                                                                                             >  1:429190/1‑140 (MQ=255)
             ttttCTTAATCTTCAAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAatat                                                                                                                         >  1:397918/1‑140 (MQ=255)
                 ctgaaTCTTCCAAAGAAATCGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTTCTGCTAAAGTCAATTTCAAATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAAACTAACCAAATATTCAt                                                                                                                     <  1:378243/137‑1 (MQ=255)
                 cTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCAt                                                                                                                     <  1:503084/140‑1 (MQ=255)
                   tAATCTTGCAAAGAAAACGTACACCGTTGAAATGTAAGATGGGAAGATAAACAGGGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTa                                                                                                                   >  1:481581/1‑140 (MQ=255)
                    aaTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATTTAATCTAACCAAATATTCATTaa                                                                                                                  >  2:288687/1‑140 (MQ=255)
                    aaTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTaa                                                                                                                  >  1:151052/1‑140 (MQ=255)
                    aaTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTaa                                                                                                                  >  2:561430/1‑140 (MQ=255)
                    aaTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATAATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTaa                                                                                                                  >  1:30631/1‑140 (MQ=255)
                      tCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAAcc                                                                                                                >  2:527656/1‑140 (MQ=255)
                      tCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAAcc                                                                                                                <  1:688943/140‑1 (MQ=255)
                         tCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGATATATAATCTAACCAAATATTCATTAACCCgg                                                                                                             >  1:271775/1‑140 (MQ=255)
                           cAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGtt                                                                                                           >  1:720455/1‑140 (MQ=255)
                            aaaGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTa                                                                                                          >  1:279234/1‑140 (MQ=255)
                            aaaGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTa                                                                                                          >  1:279187/1‑140 (MQ=255)
                              aGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTaaa                                                                                                        <  2:435291/140‑1 (MQ=255)
                                   aCGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGAGCAATAATAATTGTAATATAATCTAACCAAATATTCATTAACCCGGTAAAAATGaa                                                                                                   >  1:266587/1‑140 (MQ=255)
                                    cGTACAACCTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAGGTCAATTTCAAATCTAAAAAGAACATTATGAATAGTGCAATAATGATTGTTATATAATATAACCAAATATTCAGTAACCCGCGTAAAATGaaa                                                                                                  >  2:352011/1‑140 (MQ=255)
                                     gTACACCGTTAAAATGTAAAATGGAAACATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAACTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAAt                                                                                                 <  1:521401/140‑1 (MQ=255)
                                        cacCGTTAAAATGTAAAATGGGAAGATCAACAGAGCTGCTAAAGTCAATTGCACATCTAAAAAGAACAGTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATGTTCATTAACCCGGTTAAAATGAAATCtt                                                                                              >  2:525420/1‑140 (MQ=255)
                                                aaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTttgtttgt                                                                                      <  1:122344/140‑1 (MQ=255)
                                                aaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTttgtttgt                                                                                      <  1:185361/140‑1 (MQ=255)
                                                aaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTttgtttgt                                                                                      <  2:82182/140‑1 (MQ=255)
                                                aaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTttgtttgt                                                                                      <  1:728785/140‑1 (MQ=255)
                                                 aatgtaaaattGGAAGACAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTACATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTtgtttgtt                                                                                     <  1:510415/140‑1 (MQ=255)
                                                    gtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAACAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTGATTAACCAGCAGAATTAGAAATCTTGTGTTTGTTCac                                                                                  >  2:120649/1‑139 (MQ=255)
                                                    gtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCaa                                                                                  <  2:544842/140‑1 (MQ=255)
                                                    gtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAAGCTTTTGTTTGTTCaa                                                                                  >  1:666709/1‑140 (MQ=255)
                                                         atgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATAAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatca                                                                            >  1:297990/1‑140 (MQ=255)
                                                          tgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                           <  2:643853/140‑1 (MQ=255)
                                                          tgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                           <  2:119504/140‑1 (MQ=255)
                                                          tgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                           <  1:696193/140‑1 (MQ=255)
                                                          tgGGAAGATAAACAGTGCTGCTAAAGTCAATTTAACATCTAAAAATAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                           <  1:325872/140‑1 (MQ=255)
                                                          tgGGAAGATAAACAGTGCTGCTAAAGTACCATTCCCATGCAAGGAGCAAATTGTGGCTAATACAACAATAGTTGTTATATATCCTAAGCAAATATTGATAAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                           <  2:364789/140‑1 (MQ=255)
                                                                       aGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGa                                                              >  1:215361/1‑140 (MQ=255)
                                                                          tcgtctAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGatat                                                           <  2:372752/136‑1 (MQ=255)
                                                                          gctgctAAAGTCAATTTCACATCTAAAAAGAAAATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTTACCCGGGTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGatat                                                           <  1:177519/140‑1 (MQ=255)
                                                                               tAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTTCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACtt                                                      <  2:750305/140‑1 (MQ=255)
                                                                                   gTCATTTTAACATCTAAAAAGAAGTTTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGAcc                                                  <  2:399089/140‑1 (MQ=255)
                                                                                      aaTTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTAc                                               <  2:512901/140‑1 (MQ=255)
                                                                                      aaTTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTAc                                               <  1:208637/140‑1 (MQ=255)
                                                                                       aTTTCACATCTGAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCAATCTAGATATTACTTGACCTACt                                              >  2:68287/1‑140 (MQ=255)
                                                                                       aTTTCACAACTAAAAATAACATTATGGATAGTCCAATACTAATTGTTCAATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCCACTAACCCTCTAGATATTACTTGACCTGCt                                              <  2:350934/140‑1 (MQ=255)
                                                                                        tttCACATCTAAAAAGAACATTATGGATAGGTCAATAATAATTGTTATATAATCTAACCAAATATTCATTAAACCGGTTTAACTGAAGCCATTTGGGTGGTCAACATTATTAATCTCTCTAGATATTACTTGACCTACtt                                             <  2:85164/140‑1 (MQ=255)
                                                                                            acaTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGatt                                         >  2:152855/1‑140 (MQ=255)
                                                                                            acaTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATAAAATCTTTTGTTTGTTCAAAATCATTAATCACTCTAGATCTTACTTGACCTACTTGatt                                         >  2:403686/1‑140 (MQ=255)
                                                                                               tCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGattatt                                      >  2:673517/1‑140 (MQ=255)
                                                                                                 tAAAAAGAACTTTATTGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAg                                    <  2:170883/140‑1 (MQ=255)
                                                                                                              aTGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGc                       <  2:753088/140‑1 (MQ=255)
                                                                                                                ggATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCAc                     <  2:173149/140‑1 (MQ=255)
                                                                                                                 gATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACt                    >  1:688952/1‑140 (MQ=255)
                                                                                                                 gATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATCACTTGACCTACTTGATTATTAGCATAAAATCTCGCACt                    <  2:378281/140‑1 (MQ=255)
                                                                                                                          ataataatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAAATTACATGACGAACACAATGATGAGCATAAAAACTCGCACTAAAAGCTTg           >  1:343567/1‑140 (MQ=255)
                                                                                                                            aataacTGTTATAGCATCTCACCAAATATTCATTAACCCGGTTACAATGAAATCTTTTGCTTGTTCAACATCATTAATCGCTCCAGATATTACTTGACCTACTTGATTATTAGGATAAAAGCTCGCTCTTAAAGCTTGTa         <  2:111919/140‑1 (MQ=255)
                                                                                                                               aatTGTTACATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAAt      <  1:706607/140‑1 (MQ=255)
                                                                                                                                atTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATg     >  1:215197/1‑140 (MQ=255)
                                                                                                                                 tgcgtataCAATCTAACCAAATATTCATTAACCCGGTTAACATCGAACCTTTGGTTTGTAGTACACCGTTAGTCACTCGAGATCTTACTTGACCTACTTGATTATTAGCATAAAATCTCCTACTTAACGCTTGTAAATgg    <  2:271775/136‑1 (MQ=255)
                                                                                                                                  tGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTATTGTATGTTCAACATCAGTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAACCTTGTAAATGGt   >  2:277445/1‑140 (MQ=255)
                                                                                                                                   gTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATGGtt  <  2:114711/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                      
TTTCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATGGTT  >  CP000730/2010226‑2010496

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: