Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,298,108 T→A 100% intergenic (+4/‑232) pnp → / → USA300HOU_1207 polyribonucleotide nucleotidyltransferase/beta‑lactamase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,298,1080TA100.0% 67.4 / NA 24intergenic (+4/‑232)pnp/USA300HOU_1207polyribonucleotide nucleotidyltransferase/beta‑lactamase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (8/16);  total (8/16)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATTTAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCTGTA  >  CP000730/1297972‑1298244
                                                                                                                                         |                                                                                                                                        
ttCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATaaa                                                                                                                                      <  1:350241/141‑1 (MQ=255)
  cacaAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGt                                                                                                                                    >  2:187668/1‑141 (MQ=255)
              aaaaTAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACGCAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACa                                                                                                                        >  1:208982/1‑141 (MQ=255)
              aaaaTAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACa                                                                                                                        <  2:113378/141‑1 (MQ=255)
                         gAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCa                                                                                                             >  1:244758/1‑141 (MQ=255)
                                 ggAAGATGTATTAAAAATCGGGTACACAATTTAAGTTAAGATTACTGAAATTCCTGTCTCGTTACATGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGAttt                                                                                                     <  1:188164/141‑1 (MQ=255)
                                         tATTAAGAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAGGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGc                                                                                             <  1:113925/141‑1 (MQ=255)
                                                    ggtggtacaATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACg                                                                                  <  1:3830/135‑1 (MQ=255)
                                                    ggTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATATAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACg                                                                                  <  1:265424/141‑1 (MQ=255)
                                                      tGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCCCATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGaa                                                                                >  1:3581/1‑141 (MQ=255)
                                                      tGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGaa                                                                                <  2:16576/141‑1 (MQ=255)
                                                                gAAGTTAAGATTACGGAAATTGAAAAACAAGGTCGAGTAAATGCTTCACATCCGGTGTTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGtt                                                                      <  1:187668/141‑1 (MQ=255)
                                                                  aGTTAAGAATACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGtttt                                                                    <  1:615/141‑1 (MQ=255)
                                                                        gATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTTTTTTATTTTTTACGAAGTAACTCGTTTTGACttt                                                              >  2:136441/1‑141 (MQ=255)
                                                                               tagaTTGATAACAAAGGGCGGGTAAATGCTACGCAGAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTAt                                                       <  2:20703/138‑1 (MQ=255)
                                                                               gAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGCGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTAt                                                       <  2:239998/141‑1 (MQ=255)
                                                                                          aCAAGGTCTAGTAAATGCTTCACAAAGAGCATTAGAAGAAAAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTa                                            <  1:19900/141‑1 (MQ=255)
                                                                                          aCAAGGTCGAGTAAAAGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTa                                            <  2:66136/141‑1 (MQ=255)
                                                                                              ggTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAAc                                        >  1:335557/1‑141 (MQ=255)
                                                                                                    aGTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCttt                                   <  1:48384/141‑1 (MQ=255)
                                                                                                     gTAAATGCTTCACATAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTtta                                  <  2:3581/141‑1 (MQ=255)
                                                                                                               cacaTAGAGCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTtgtg                        <  1:346691/141‑1 (MQ=255)
                                                                                                                    agagCATTAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGCATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTCTGTGTGCaa                   >  2:350428/1‑141 (MQ=255)
                                                                                                                           tAGAAGAATAATATATAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTaa            >  2:368896/1‑141 (MQ=255)
                                                                                                                                     atatatAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCtgtt  >  2:228566/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                        
TTCACAAATTTCAAAAAATAGAATTGAAAAAGTGGAAGATGTATTAAAAATCGGTGACACAATTGAAGTTAAGATTACTGAAATTGATAAACAAGGTCGAGTAAATGCTTCACATAGAGCATTAGAAGAATAATATTTAAAGTCATATGACGACAATGTATCGTCATGTGATTTTTTTATGCCACTTTTTACGAAGTGACCCGTTTTGAATTTGTTGTATTGAACATTTTAAAACGCTTTATTATTTTGTGTGCAACTGTTAATTATCCTGTA  >  CP000730/1297972‑1298244

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: