Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 481,229 A→G 100% T5A (ACC→GCC)  acrR → transcriptional repressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP009273481,2290AG100.0% 76.6 / NA 23T5A (ACC→GCC) acrRtranscriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (14/9);  total (14/9)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTCCGATTTCAAATTGGTCAATGGTCAAAAGTTAATAAACCCATTGCTGCGTTTATATTATCGTCGTGCTATGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAACCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTC  >  CP009273/480981‑481476
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                       
tgttgGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTCCGATTTCAAATTGGTCAATGGTCAAAAGTTAATAAACCCATTGCTGCGTTTATATTATCGTCGTGCTATGGTACATACATTCAAAAATGTATGTAAATCTAACGCCTGTAAATTCACGAAAATATGGCACGAAAAGCCAAACAAGAAGCGAAAGAAACgcgc                                                                                                                                                                                                                               >  1:240085/1‑275 (MQ=255)
                                                                                                                                                      ccATTGCTGCGTTTATATTATCGTCGTGCTATGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGCACATATGGAACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACAAATCCTCGATGTGGCTCTACGTCTTTTCTAACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATGGCAAAAGCAGCTGGAGTTAAGCGCGGTGAACTCTACGGGCATTTTAAAGACAAGACTGATTTGTACAGTAAGATCTg                                                                          >  1:282542/1‑274 (MQ=255)
                                                                                                                                                                                tGCTATGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTcac                                                                                                                                                                                          >  2:376930/1‑136 (MQ=255)
                                                                                                                                                                                  cTATGGTACATACATCCACAAATGTCTGTAAATCTAACGCCTGTAAATACACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTc                                                                                                                                                                                                                   >  1:60895/1‑109 (MQ=255)
                                                                                                                                                                                   tATGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTGCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTAcgcg                                                                                                                                <  1:69288/191‑1 (MQ=255)
                                                                                                                                                                                    aTGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCAcagca                                                                                                                                                                                      <  1:376935/136‑1 (MQ=255)
                                                                                                                                                                                      ggTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGAtg                                                                                                                                                                                                               <  2:60895/109‑1 (MQ=255)
                                                                                                                                                                                            tacatTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTtct                                                                                                                                                                                             >  2:445168/1‑121 (MQ=255)
                                                                                                                                                                                                ttCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTcaca                                                                                                                                                                                         <  1:445174/121‑1 (MQ=255)
                                                                                                                                                                                                 tCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGaa                                              >  2:101753/1‑259 (MQ=255)
                                                                                                                                                                                                  cacaAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTAc                                                                                                                                                                                                      >  2:235194/1‑106 (MQ=255)
                                                                                                                                                                                                     aaaTGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTag                                          <  1:101754/259‑1 (MQ=255)
                                                                                                                                                                                                      aaTGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCt                                                                                                                                                                                                  <  1:235198/106‑1 (MQ=255)
                                                                                                                                                                                                                 aTCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAATAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTa                                                                                                                                    >  2:285764/1‑157 (MQ=255)
                                                                                                                                                                                                                  tCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAACCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGATGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCACTCTACTGGCATTTTAAAGACAAGTCGGATTTGTTc                                                                                     >  1:18730/1‑203 (MQ=255)
                                                                                                                                                                                                                    tAACGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGACGCGCAAGAAACGCGcc                                                                                                                                                                                                                              >  1:615388/1‑64 (MQ=255)
                                                                                                                                                                                                                     aaCGCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAATAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTAcgcg                                                                                                                                <  1:285769/157‑1 (MQ=255)
                                                                                                                                                                                                                        gCCTGTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAaca                                                                                                                                                                                                                          <  2:615377/64‑1 (MQ=255)
                                                                                                                                                                                                                            gTAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGAc                                                                                                    >  1:28473/1‑178 (MQ=255)
                                                                                                                                                                                                                             tAAATTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACAAATCCTCGATGTGGCTGTACGTCTTTTCTCACAGCAGGGGGTATCAGCCACCTCGCTGGGCGAGAATTCAAAAGCAGCTGGCGTTACGCGCGGCACAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGGGATATCTGGGAACTGTCATAATCAAATATTGGTGAACTAGAGCTGGAGGATGAGACAAAATTCCCNGTCGCTCCAcacgt  >  2:498848/1‑271 (MQ=255)
                                                                                                                                                                                                                                aTTCACGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGt                                                                                                <  2:28473/178‑1 (MQ=255)
                                                                                                                                                                                                                                    aCGAACATATGGCACGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCAat                                                       >  1:219588/1‑215 (MQ=255)
                                                                                                                                                                                                                                                  cGAAAAGCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCtt                                                                                                                                                                                                 >  2:53196/1‑63 (MQ=255)
                                                                                                                                                                                                                                                    aaaagCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGAt                                                                                                                                                                                                                >  1:136479/1‑46 (MQ=255)
                                                                                                                                                                                                                                                    aaaagCCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCa                                                         >  1:167500/1‑197 (MQ=255)
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                       
TGTTGGGCCTGTTTGTCGTCACATCCTGTTAGGGCTAAGCTGCCTGAGAGCATCAGAACGACCGCCAGAGGCGTAAACCCTCTGTTTTTGTTCATATGTAAACCTCGAGTGTCCGATTTCAAATTGGTCAATGGTCAAAAGTTAATAAACCCATTGCTGCGTTTATATTATCGTCGTGCTATGGTACATACATTCACAAATGTATGTAAATCTAACGCCTGTAAATTCACGAACATATGGCACGAAAAACCAAACAAGAAGCGCAAGAAACGCGCCAACACATCCTCGATGTGGCTCTACGTCTTTTCTCACAGCAGGGGGTATCATCCACCTCGCTGGGCGAGATTGCAAAAGCAGCTGGCGTTACGCGCGGTGCAATCTACTGGCATTTTAAAGACAAGTCGGATTTGTTCAGTGAGATCTGGGAACTGTCAGAATCCAATATTGGTGAACTAGAGCTTGAGTATCAGGCAAAATTCCCTGGCGATCCACTCTC  >  CP009273/480981‑481476

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑