Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_hsa_pgi4,037,2260CG21.9% 64.6 / 21.5 41intergenic (+9/‑34)ileT/alaTtRNA‑Ile/tRNA‑Ala
Reads supporting (aligned to +/- strand):  ref base C (20/12);  new base G (0/9);  total (20/21)
Fisher's exact test for biased strand distribution p-value = 1.32e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.97e-01
Rejected as consensus: Frequency below/above cutoff threshold.

AAAGAAGCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCA  >  NC_000913_3_hsa_pgi/4037077‑4037366
                                                                                                                                                     |                                                                                                                                            
aaaGAAGCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCAc                                                                                                                                              >  2:3559885/1‑150 (MQ=34)
aaaGAAGCGTTCTTTGAAGGGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTCCAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAACTTTGCAc                                                                                                                                              <  1:1759783/150‑1 (MQ=255)
 aagaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACg                                                                                                                                             <  2:92868/150‑1 (MQ=34)
 aagaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACg                                                                                                                                             >  2:3248718/1‑150 (MQ=34)
   gaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGc                                                                                                                                           >  1:741434/1‑150 (MQ=34)
   gaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGc                                                                                                                                           <  1:4622/150‑1 (MQ=34)
   gaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTAAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGTTTCAAGTCCACTCATGACTACCAAATTTGCACgga                                                                                                                                           >  2:730173/1‑149 (MQ=255)
   gaagCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTATACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGc                                                                                                                                           >  2:2599846/1‑150 (MQ=21)
      gCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCata                                                                                                                                        >  2:778601/1‑148 (MQ=21)
       ccttCTTTGAAGTGCTCACACAGATTGTCTGATGAAAAAGACCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTCGTTAGAGCGCACCCCTGATAAGGATGAGGTCGTTGGTTCAAGTCCACTCAGGCCTAACAAATTTTCACGGCAAAt                                                                                                                                       >  1:1310329/3‑150 (MQ=11)
       cGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGCGCGCACACCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAt                                                                                                                                       >  1:2769372/1‑150 (MQ=21)
       cGTTCTTTGAAGTGCTCACACAGATTGGCTGATGAAAATGAGCAGTAAAACCTCTACCGGCGTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAt                                                                                                                                       <  2:3405451/150‑1 (MQ=255)
        gTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAtt                                                                                                                                      >  2:3205969/1‑150 (MQ=34)
        gTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAtt                                                                                                                                      >  2:859181/1‑150 (MQ=34)
        gTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAtt                                                                                                                                      >  2:1909142/1‑150 (MQ=34)
        gTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAAtt                                                                                                                                      <  2:147770/150‑1 (MQ=34)
        gTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTATACAGGCTTGTAGCGAAGGTGGTTTGAGCGCACCCCTGATAAGGGTGAGGTCGGTTGTTCAAGTCCACTCAGGCCAACAAAATTTGCACGGCAAAtt                                                                                                                                      >  1:766032/1‑150 (MQ=11)
         ttCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAATCCTCTACAGGCTTGTAGCGCAGGTGGTTATAGCGCTCCCCTGATAAGGGTGAGGGCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAAttt                                                                                                                                     <  2:2794630/150‑1 (MQ=11)
          tCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTg                                                                                                                                    >  1:1817906/1‑150 (MQ=32)
          tCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTg                                                                                                                                    <  1:3062436/150‑1 (MQ=32)
          tCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTGGTAGCTCAGGTGGTTATAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTg                                                                                                                                    <  2:2599178/150‑1 (MQ=11)
          gcTTTGAAGTGCTCACACAGAATGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCATGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTg                                                                                                                                    <  1:764917/149‑1 (MQ=17)
           cTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGa                                                                                                                                   >  2:4078683/1‑150 (MQ=32)
           cTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGa                                                                                                                                   <  2:2250962/150‑1 (MQ=32)
           cTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGGGAGGGCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGa                                                                                                                                   <  1:30637/150‑1 (MQ=17)
           cTTTGAAGTGCTCACACAGATTGTCTGAGGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGAGAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTgg                                                                                                                                   <  2:1722773/150‑2 (MQ=11)
           cTTTGAAGTGCTCACACAGATTGTCTGAAGAAAATGAGCAGTAAAACCTCTACACGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGGCGGTGGTGCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGa                                                                                                                                   <  1:160695/150‑1 (MQ=255)
           cTTTGAAGTGCGCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTgg                                                                                                                                   <  1:2198638/150‑2 (MQ=255)
            tttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTggt                                                                                                                                  <  2:3346736/150‑3 (MQ=12)
            tttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTggt                                                                                                                                  <  1:3898458/150‑3 (MQ=12)
            tttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGaa                                                                                                                                  >  1:366970/1‑150 (MQ=32)
            tttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGGGGTTAGAGCGCACCCCTGATAAGGGTGAGGGCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGaa                                                                                                                                  <  2:2808066/150‑1 (MQ=17)
            tttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGT‑AAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTggta                                                                                                                                 <  1:1905363/150‑4 (MQ=11)
             ttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACCGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTggta                                                                                                                                 <  1:1130671/150‑4 (MQ=11)
             ttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGTCTTGTAGCTCAGGTGGTTAGAGAGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCCGTGCAAATTTggta                                                                                                                                 <  2:2822805/150‑4 (MQ=11)
             ttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAag                                                                                                                                 >  2:314242/1‑150 (MQ=32)
             ttGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAag                                                                                                                                 >  2:1563247/1‑150 (MQ=32)
             atGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGAAAAACCTCTACAGGCTTGAAGCTCAGGGGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAag                                                                                                                                 <  2:3651326/149‑1 (MQ=12)
              tGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAaga                                                                                                                                >  2:3014307/1‑150 (MQ=32)
              tGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAaga                                                                                                                                >  1:2983030/1‑150 (MQ=32)
              tGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAaga                                                                                                                                >  1:143477/1‑150 (MQ=32)
                                                                                                                                    ggacTACCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATaaaaa          >  1:3699653/4‑150 (MQ=1)
                                                                                                                                            aattttGCACGGCAAATTTGAAGTGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCa  <  2:2188994/147‑1 (MQ=1)
                                                                                                                                                     |                                                                                                                                            
AAAGAAGCGTTCTTTGAAGTGCTCACACAGATTGTCTGATGAAAATGAGCAGTAAAACCTCTACAGGCTTGTAGCTCAGGTGGTTAGAGCGCACCCCTGATAAGGGTGAGGTCGGTGGTTCAAGTCCACTCAGGCCTACCAAATTTGCACGGCAAATTTGAAGAGGTTTTAACTACATGTTATGGGGCTATAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAGGTCTGCGGTTCGATCCCGCATAGCTCCACCATCTCTGTAGTGATTAAATAAAAAATACTTCA  >  NC_000913_3_hsa_pgi/4037077‑4037366

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑