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% 108.0 / NA 34intergenic (‑96/‑20)nanA/USA300HOU_0336N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (22/12);  total (22/12)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTT  >  CP000730/367515‑367779
                                                                                                                                 |                                                                                                                                       
aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTTTattcatattcat                                                                                                                               >  1:43389/1‑140 (MQ=255)
          taAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATCGTTTTCATATGTATGTAtaattaa                                                                                                                     >  2:244697/1‑140 (MQ=255)
                ttttAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGaaaa                                                                                                               >  1:47847/1‑140 (MQ=255)
                 tttAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAAt                                                                                                              <  2:20798/140‑1 (MQ=255)
                   tAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGt                                                                                                            <  2:277958/140‑1 (MQ=255)
                    aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTTTATTTATTAAAAATGtt                                                                                                           >  1:261719/1‑140 (MQ=255)
                    aaaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGtt                                                                                                           >  1:180094/1‑140 (MQ=255)
                     aaTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAGAATTGTATTCATATTTATGTATAATTAATGAAAATGttt                                                                                                          >  2:176651/1‑140 (MQ=255)
                       tttttGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGttttt                                                                                                        <  2:181690/138‑1 (MQ=255)
                        cTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTc                                                                                                       <  1:217391/140‑1 (MQ=255)
                               cATTATGAAGTCCCTTCAAAAATCATTTGATAATATCGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACCATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                                <  1:271329/140‑1 (MQ=255)
                               cATTATAAAGTACCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCa                                                                                                <  1:71251/140‑1 (MQ=255)
                                  tATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAAGTGTATTCATATTTATGTATAATTAATAAAATTGTTTTTCAAAATCAATa                                                                                             >  2:260224/1‑140 (MQ=255)
                                  tATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTATAAACGCTATCATAAAATGTAACAATATCTTTTTGAATATTGTATTATTATTTATCTATAATTAATAATAATTTTTTTCAAAAtatata                                                                                             >  2:185494/1‑135 (MQ=255)
                                     gAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAACCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATAAAAATGTTTTTCAAAATCAATAGaa                                                                                          >  1:135994/1‑140 (MQ=255)
                                       aGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAAt                                                                                        <  1:220920/140‑1 (MQ=255)
                                          cccTCCAAAAATCATTTGATAATATACGACAGGTGTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGga                                                                                     >  1:288447/1‑140 (MQ=255)
                                               cAAAAATCATTTGATAAGATAGTTTACAGCTATAGTTGTAAACGCTATCATACAATGTAACAATATCTTTTTTAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATACATAAAAATAgagtgag                                                                                >  1:88733/1‑140 (MQ=255)
                                                aaaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagtgagt                                                                               <  1:228901/140‑1 (MQ=255)
                                                 aaaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTa                                                                              >  1:289133/1‑140 (MQ=255)
                                                  aaaTCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTaa                                                                             <  1:232409/140‑1 (MQ=255)
                                                       aTTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGAGAGTAAGgtgt                                                                        >  1:102711/1‑140 (MQ=255)
                                                                 ataGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGc                                                              >  1:278809/1‑140 (MQ=255)
                                                                       tACAGCTAGAATTGTAAACGCGATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGa                                                        >  2:170183/1‑140 (MQ=255)
                                                                                  ttGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCa                                             >  1:204534/1‑140 (MQ=255)
                                                                                   tGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCAc                                            <  1:160573/140‑1 (MQ=255)
                                                                                      aaaCGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCa                                         >  2:275005/1‑140 (MQ=255)
                                                                                                     aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGt                          >  1:237358/1‑140 (MQ=255)
                                                                                                       gTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTTTAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGATGGCACTCAAATTAAATCGGCAGtga                        >  2:24176/1‑138 (MQ=255)
                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTTAGCACGGTGTATTACATAGAAAACGATATTGGAGGCACTCAAATTAAAACGGCAGTTATTg                     >  2:247379/1‑140 (MQ=255)
                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTg                     >  2:245597/1‑140 (MQ=255)
                                                                                                          aCAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTg                     >  1:266152/1‑140 (MQ=255)
                                                                                                             atatCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATa                  <  1:278784/140‑1 (MQ=255)
                                                                                                                           aTTTTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATg    <  2:266152/140‑1 (MQ=255)
                                                                                                                             tGTATTCATATTTATGTATAATTAATGAAACTGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATGGGAATGGAAAGTGGAGGCACTCAAATTAAATCGGCAGTTATGAAAAAGCAATGGatagtgat  >  2:116439/1‑133 (MQ=255)
                                                                                                                                 |                                                                                                                                       
ACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTT  >  CP000730/367515‑367779

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: