Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 367,644 G→T 100% intergenic (‑96/‑20) nanA ← / → USA300HOU_0336 N‑acetylneuraminate lyase/possible transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730367,6440GT100.0% 137.6 / ‑6.5 44intergenic (‑96/‑20)nanA/USA300HOU_0336N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base T (24/19);  minor base A (0/1);  total (24/20)
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.

GAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAA  >  CP000730/367510‑367773
                                                                                                                                      |                                                                                                                                 
gAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGACGTCTCTCCAAAAATCCTTTGATCATATAATTTACAGCTATAATTTATAACGCGATCATAAAAAGAAACAACATCTTTTGAAAAATGTTATTCattt                                                                                                                             >  2:24948/1‑139 (MQ=255)
gAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTGGATCATTAGATCAGGGTATAATATAGTTTACAGCTTTAATTGTAAACGCTATTATAAAATGTAACAATAGCTTTTTGAGAATTGTATTCatat                                                                                                                             >  2:260394/1‑141 (MQ=255)
gAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTCTTCatat                                                                                                                             >  2:94248/1‑141 (MQ=255)
          gCATATAAACCTTTTAAATTCTGATTCATTATGAAGTCCCTCCATAAATCATTTGATAAAATAGAAAACAACTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTCTTCCTATTTAtaaaaaa                                                                                                                   <  2:49377/141‑7 (MQ=255)
              ataAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAGTATCTTTTTGAAAATTGTATTCATATTTATGTAtaattaa                                                                                                               >  2:145469/1‑141 (MQ=255)
                   ccTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGaaa                                                                                                          >  1:145074/1‑141 (MQ=255)
                        tAACTCTTCGCTCATTACCAACTCCCTCCAAAAATCATTTGATAATACAGTCTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGtt                                                                                                     <  1:145824/141‑1 (MQ=255)
                        tAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGACAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGtt                                                                                                     <  2:116749/141‑1 (MQ=255)
                         aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGttt                                                                                                    <  1:251125/141‑1 (MQ=255)
                                   tCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAGCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                          >  2:207651/1‑141 (MQ=255)
                                   tCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                          >  2:66927/1‑141 (MQ=255)
                                     aTTATGAAGGCCACCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCAGATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                        <  2:117619/141‑1 (MQ=255)
                                       tATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAg                                                                                      <  2:19363/141‑1 (MQ=255)
                                          gaagccacaccAAAAATCATTTGATAATATATTTTACAGCTATAATTTTAAATGCTATCATAAAATGTGACAATATCATTCTGAAAATTGTAAGCATATTTATGTATAATTAATGAAACTGTTTTTCAAAATCAATAGgaa                                                                                   <  2:135961/132‑1 (MQ=255)
                                              tCCCTCCAAAAATCATTTGAGAATATAGTTTACAGCTATAATTGTAAACGCTATCATATAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGga                                                                               >  1:173092/1‑141 (MQ=255)
                                                 cTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtg                                                                            <  2:84556/141‑1 (MQ=255)
                                                      aaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTaa                                                                       >  1:26093/1‑141 (MQ=255)
                                                      aaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTaa                                                                       >  2:207935/1‑141 (MQ=255)
                                                             tttGATACTATAGTTTACAGCTATAATTTTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTAt                                                                <  2:100614/141‑1 (MQ=255)
                                                             tttGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTAt                                                                >  1:284721/1‑141 (MQ=255)
                                                               tGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTa                                                              >  1:30960/1‑141 (MQ=255)
                                                                     tataGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGc                                                        <  2:85558/141‑1 (MQ=255)
                                                                      ataGTTTACAGCTATATTTGTTAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATAGCa                                                       >  1:146954/1‑141 (MQ=255)
                                                                      ataATTTAAAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTCCAAAAACAATAGAAATGGATTGAATAAGGTGTATTACATAGCa                                                       >  2:248305/1‑141 (MQ=255)
                                                                         gTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATc                                                    <  1:255660/141‑1 (MQ=255)
                                                                             aCAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATAGTTATGTATAATTAATGAAAATGTTTTTCAACATCAATAGAAATCGAGCTAGTACGGTGTATTGAATCGCAATCGata                                                >  2:230790/1‑141 (MQ=255)
                                                                              cAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGatat                                               <  1:115503/141‑1 (MQ=255)
                                                                               aGCTATAATTGTAAACGCTATGATAAAATGTAACAATATCTTTTTTAAAATTTTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGCGTGAGTCAGGTGTTTGACAACGCGGCCGATAtt                                              >  2:196738/1‑141 (MQ=255)
                                                                                    taATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAgg                                         <  1:209444/141‑1 (MQ=255)
                                                                                     aaTTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATTGAGTACGTAAGTTGTATTACATCGCAATCGATATTgttggc                                        >  2:206373/1‑136 (MQ=255)
                                                                                         gTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTc                                    <  1:207935/141‑1 (MQ=255)
                                                                                          tAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCa                                   <  2:30960/141‑1 (MQ=255)
                                                                                           aaaCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTAAGTATAATTAATGAAAATGTTTTTCAAAATAAATAGAAATGGAGTGAGCAAGGTGTATTACATAGCAATCGATATTGGAGCCACTCaa                                  >  2:2158/1‑141 (MQ=255)
                                                                                                 tATCATAAAATTTCACAATATCTTTTTGAATACTGTATTCATATTTATGTATAAGTAATGAAAATGTTTTTCAAAATCATTAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGGGGCACTCAAATTaaa                            <  1:225117/141‑1 (MQ=255)
                                                                                                 tATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGAACTCAAATTaaa                            >  1:86182/1‑141 (MQ=255)
                                                                                                  aTCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTTAAATTTAATAGAAATGGAGTGAGTAAGGTGTATTAGATCGCAATCGATATTGGAGGCACTCAAATTAAAt                           >  2:171751/1‑141 (MQ=255)
                                                                                                   tCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATc                          <  2:145074/141‑1 (MQ=255)
                                                                                                     atacactGTAACAACAACGTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCgg                        >  2:277929/7‑141 (MQ=255)
                                                                                                      tAAAATGTAACAATATCTTTTTTTTTTTTTTTTTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATAATGAAAGCACTCAATTTAAATCgtt                       >  2:265788/1‑139 (MQ=255)
                                                                                                      tAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCTCAATCGATATTGGAGGCACTCAAAGTAAATCGGc                       >  1:49690/1‑141 (MQ=255)
                                                                                                         aaTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGt                    <  1:128215/141‑1 (MQ=255)
                                                                                                               aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACGCAAATTAAATCGGCAGTTATTGa              >  1:111687/1‑141 (MQ=255)
                                                                                                                        ttttGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAAtt     <  2:176823/141‑1 (MQ=255)
                                                                                                                           tGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGaa  <  1:99164/141‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                 
GAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAA  >  CP000730/367510‑367773

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: ‑