Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092735,1590GA42.9% 26.5 / 11.1 28intergenic (+139/‑75)thrC/yaaXthreonine synthase/DUF2502 domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base G (15/1);  new base A (0/12);  total (15/13)
Fisher's exact test for biased strand distribution p-value = 4.27e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ATCTATTCATTATCTCAATCAGGCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTCCCATGGCAGCA  >  NZ_CP009273/5022‑5296
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atttATTCATTATCTCAATCAGGCCGGGTTTGCTTTTATGCAGCCCGGTTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTAAATAAATGCGGTAACTTAGAGATTAGGATTGCGgaga                                                                                                                                          <  2:64172/136‑1 (MQ=255)
               cAATCAGGCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGtt                                                                                                                           >  1:56589/1‑139 (MQ=255)
                aaTCAGGCCGGGTTGTTTTTAATCCAGCCCGGTTTTTTTATAAAAAAATTAGGGAAAAAAATGACGGGAAAAAAGGAGAAATTCACAAAAATGGCGTTAACTTAGAGATTAGGATTGGGGAAAAAAAAAACCGCCGTtc                                                                                                                          <  1:268755/139‑1 (MQ=255)
                      gCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATc                                                                                                                     >  1:137002/1‑138 (MQ=255)
                      gCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATc                                                                                                                     >  1:395986/1‑138 (MQ=255)
                      gCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATc                                                                                                                     >  1:45112/1‑138 (MQ=255)
                          ggTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGt                                                                                                                 >  1:96335/1‑138 (MQ=255)
                                tttttATGCAGCCCGGTTTTTTTAAGAAAAAATTAGGAAAAAAAAGGACGGGAAAAAAGGAAAAATTCTAAAAAAAGGGGGTAATTTAGAGATTAGGATTGGGGAAAATAACAACCGCCGTTCTCATCGAGTAATCTcc                                                                                                          <  1:263465/138‑1 (MQ=255)
                                     aTGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGata                                                                                                     >  2:521286/1‑139 (MQ=255)
                                     aTGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGata                                                                                                     >  1:240140/1‑139 (MQ=255)
                                          gCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGAc                                                                                                >  1:566757/1‑139 (MQ=255)
                                                       ataaagaaATTATGGAAAAAAATGAAAGGAAAAAAGGAAAAATTCTAAATAAATGGGGTAATTGAGAAATTAGGATTCCGGAGAATAAAAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCa                                                                                    <  1:1181/135‑1 (MQ=255)
                                                       ataaaaaaaTTAGGGAAAAAAATGACAGGAAAAAAGGAAAAATTCTAAATAAATGCGGTAACTTAGAGATTAGGATGGCGGAAAAAAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCa                                                                                    <  1:606750/132‑1 (MQ=255)
                                                       aaaaaaaaaTTAGGAAAAAAAAGGAAAGGAAAAAAGAAAAAATTCTAAAAAAAGGCGGTAATTGAAAAATTAGGATGGGGGAAAAAAAAAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCa                                                                                    <  2:96335/132‑1 (MQ=255)
                                                       aTGAAAAAATGAGGAAAAAAAAGGAAAGGAAAAAAGGAAAAATTCAAAAAAAATGCGGTAACTAAGAGATTAGGATGGCGAAAAATAAAACCCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCa                                                                                    <  2:137002/138‑1 (MQ=255)
                                                                    gaaaaaaaaTGAAAGGAAAAAAGGAAAATTCCTCAATAAATGCGGTATTTAAAAGATTAGGATTGGGGAAAAAAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGt                                                                      <  1:458510/135‑1 (MQ=255)
                                                                       gaAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAAc                                                                   >  2:365527/1‑139 (MQ=255)
                                                                       aaaaaaGGACAGGAAAAAAGGAAAAATTCTAAATAAATGCGTTAATTAAGAGTTTAGGTTGGCGGAAAAAAAAAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAAc                                                                   <  2:590252/138‑1 (MQ=255)
                                                                        aaaaaTGACAGGAAAAAAGGAAAAATTCTAAAAAAATGCGGTAACTTAGAGATTAGGATGGCGGAAAAAAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAAcc                                                                  <  1:9486/139‑1 (MQ=255)
                                                                                     aaaaaGAAAAAATTCCAAAAAAGTGCTGTAACTTAGAGATAAGGATTGGGGAAAAAAAAAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATg                                                     <  2:45112/139‑1 (MQ=255)
                                                                                             gaAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTAt                                             >  1:222840/1‑139 (MQ=255)
                                                                                                                gTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTcc                             >  2:324426/1‑136 (MQ=255)
                                                                                                                gTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTg                          >  1:487311/1‑139 (MQ=255)
                                                                                                                gTAACTTAGAGATTAGGATTGCGGAAAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTcc                             <  1:324426/136‑1 (MQ=255)
                                                                                                                         agagTAGGATTGCGGAAAAAAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTc                 <  2:363067/139‑1 (MQ=255)
                                                                                                                         agaTTAGGAGAGGGGAAAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTc                 <  2:222840/139‑1 (MQ=255)
                                                                                                                              aGGATTGCGGAGTATAACAACCGCCGTTCTCATAGAGTAATCTCCGGATATCGACCCCTAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTcc            >  2:424577/1‑139 (MQ=255)
                                                                                                                                     cGGAGAATGACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTCCCATgg       >  2:112987/1‑137 (MQ=255)
                                                                                                                                     cGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTCCCATgg       >  1:207744/1‑137 (MQ=255)
                                                                                                                                        agaAAAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTCCCATGgcagca  <  1:112987/139‑1 (MQ=255)
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ATCTATTCATTATCTCAATCAGGCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATTATGGAGAAAAATGACAGGGAAAAAGGAGAAATTCTCAATAAATGCGGTAACTTAGAGATTAGGATTGCGGAGAATAACAACCGCCGTTCTCATCGAGTAATCTCCGGATATCGACCCATAACGGGCAATGATAAAAGGAGTAACCTGTGAAAAAGATGCAATCTATCGTACTCGCACTTTCCCTGGTTCTGGTCGCTCCCATGGCAGCA  >  NZ_CP009273/5022‑5296

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑