Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_bme_pgi1,757,6880TA21.1% 80.1 / 21.6 38intergenic (+31/+33)lpp/ldtEmurein lipoprotein/murein L,D‑transpeptidase
Reads supporting (aligned to +/- strand):  ref base T (17/13);  new base A (4/4);  total (21/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.83e-01
Rejected as consensus: Frequency below/above cutoff threshold.

CTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGA  >  NC_000913_3_bme_pgi/1757550‑1757832
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cTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCAtt                                                                                                                                       <  3:208521/150‑1 (MQ=255)
   aGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACAATGTGCGCCAttttt                                                                                                                                    <  1:290274/150‑1 (MQ=255)
          acgTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGGTCGTGCTAACCAGCGTCTGGACAACGTGGCTACTGGTGACGGGAATTAATACTACCTGTGAAGGGAAAAATGGCGCACATTGTGCGCCAGTTTTTTTGTcg                                                                                                                             >  1:436886/1‑149 (MQ=255)
               aaCGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGt                                                                                                                        >  1:58333/1‑150 (MQ=255)
                   cAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTAc                                                                                                                    >  1:576158/1‑150 (MQ=255)
                    aaTGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTAcc                                                                                                                   >  3:20421/1‑150 (MQ=255)
                          ttCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACt                                                                                                             >  1:540704/1‑150 (MQ=255)
                                 gTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTTAAAATCATCTGGACAACATGGCTATTAAATACCGCAAGTAATAGTACCTGCAAAGTGAAAAATGGCTCACATTTTGTGCCATTTTTTATGTCTGCCGTTTACAGCAACTGCGTCAc                                                                                                      <  4:20421/150‑1 (MQ=255)
                                       gctgctAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTaa                                                                                                <  1:222893/150‑1 (MQ=255)
                                                    aCGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGc                                                                                   >  4:117413/1‑150 (MQ=255)
                                                     cGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGct                                                                                  <  2:65929/150‑1 (MQ=255)
                                                           tCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGtt                                                                            >  3:215437/1‑150 (MQ=255)
                                                              tGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCAc                                                                         <  2:58333/150‑1 (MQ=255)
                                                                  aaCCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGGAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCAc                                                                         >  1:337088/1‑146 (MQ=255)
                                                                  aaCCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCAc                                                                         <  2:337088/146‑1 (MQ=255)
                                                                       gCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTgcg                                                                <  2:540704/150‑1 (MQ=255)
                                                                           cTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGa                                                            <  2:160207/150‑1 (MQ=255)
                                                                             ggACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCAcc                                                                        >  1:519156/1‑136 (MQ=255)
                                                                             ggACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCAcc                                                                        <  2:519156/136‑1 (MQ=255)
                                                                                 aacaTGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTAc                                                      >  3:99918/1‑150 (MQ=255)
                                                                                   caTGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACAATGTGCGcc                                                                                                                                          >  1:535889/1‑64 (MQ=255)
                                                                                   caTGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACAATGTGCGcc                                                                                                                                          <  2:535889/64‑1 (MQ=255)
                                                                                    aTGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGa                                                   >  3:353498/1‑150 (MQ=255)
                                                                                                               tACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCg                                >  1:173877/1‑142 (MQ=255)
                                                                                                               tACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCg                                <  2:173877/142‑1 (MQ=255)
                                                                                                                      gaagtgaaAAATGGCGCACATTGTGCGCCATTTTTTTTTTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTg                 >  4:78789/1‑150 (MQ=255)
                                                                                                                      gaagtgaaAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTg                 >  1:259420/1‑150 (MQ=255)
                                                                                                                            aaaaaTGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGc                                                                                   >  2:159260/1‑78 (MQ=255)
                                                                                                                            aaaaaTGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGc                                                                                   <  1:159260/78‑1 (MQ=255)
                                                                                                                            aaaaaTGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCAcc           <  2:576158/150‑1 (MQ=255)
                                                                                                                            aaaaaTGGCGCACAATGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCAcc           >  3:81050/1‑150 (MQ=255)
                                                                                                                                 tGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAAc      >  3:43995/1‑150 (MQ=255)
                                                                                                                                 tGGCGCACAATGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCAcgc                                                                                                    >  3:213174/1‑56 (MQ=255)
                                                                                                                                 tGGCGCACAATGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCAcgc                                                                                                    <  4:213174/56‑1 (MQ=255)
                                                                                                                                  ggCGCACAATGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCgg                               >  2:243446/1‑124 (MQ=255)
                                                                                                                                  ggCGCACAATGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCgg                               <  1:243446/124‑1 (MQ=255)
                                                                                                                                    cgcACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCACTGCTTGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCgg   >  2:344787/1‑150 (MQ=255)
                                                                                                                                     gcACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGa  <  4:215437/150‑1 (MQ=255)
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CTGAGCAACGACGTGAACGCAATGCGTTCCGACGTTCAGGCTGCTAAAGATGACGCAGCTCGTGCTAACCAGCGTCTGGACAACATGGCTACTAAATACCGCAAGTAATAGTACCTGTGAAGTGAAAAATGGCGCACATTGTGCGCCATTTTTTTTGTCTGCCGTTTACCGCTACTGCGTCACGCGTAACATATTCCCTTGCTCTGGTTCACCATTCTGCGCTGACTCTACTGAAGGCGCATTGCTGGCTGCGGGAGTTGCTCCACTGCTCACCGAAACCGGA  >  NC_000913_3_bme_pgi/1757550‑1757832

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑