Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,556,2070TC29.7% 60.2 / 14.6 37S215G (AGT→GGT) rtcARNA 3'‑terminal phosphate cyclase
Reads supporting (aligned to +/- strand):  ref base T (25/1);  new base C (0/11);  total (25/12)
Fisher's exact test for biased strand distribution p-value = 1.40e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACGGGCGAGACTTCCGT  >  NC_000913/3556068‑3556345
                                                                                                                                            |                                                                                                                                           
accTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑Ct                                                                                                                                             >  1:1040593/1‑140 (MQ=255)
      gCACTGACGCGCTTTTCACCGACGAAAAAAAAGCGTTGGGTGATTTTTTCTCTTTCGACTTAAAGCGAGACGGTATTCCCCGGCCCCTGGTCGCGCGGCAGGTTATAAATATTCTGTTCATGC‑GGGAAAAA‑cc‑cccccgc                                                                                                                                     <  2:1543/140‑4 (MQ=255)
         cTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAg                                                                                                                                   >  1:74485/1‑140 (MQ=255)
            aCGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGCGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAgtgt                                                                                                                                >  2:946016/1‑140 (MQ=255)
                 cTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGa                                                                                                                           >  2:194693/1‑140 (MQ=255)
                           acgacAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTc                                                                                                                 >  2:1252873/1‑140 (MQ=255)
                            cgacAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCa                                                                                                                >  2:683774/1‑140 (MQ=255)
                            cgacAAAAAAGCGTTCGGTGATATTTTCACTTTCCACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCa                                                                                                                >  2:85092/1‑140 (MQ=255)
                                       cGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgcg                                                                                                     >  2:210288/1‑140 (MQ=255)
                                            ggtattttttcCACTTTCGACTAAAGGCGAGAGGTTTTTCCCCGCCCCCGGGTCGCGCGGCGGTTTATGAATTTTCTGTCCAGGCGGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGca                                                                                                <  2:1111473/133‑1 (MQ=255)
                                              taattttttCGCTTTCGACTCAAAGCGAGACGTTTTTCCCCGGCCCCGGGCCGCGGGGCAGTTTATGAATTTTCTGTTCAGGAAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGcaca                                                                                              <  2:926882/135‑1 (MQ=255)
                                                 ttttttCCTTTTCGACTTAAAGCGAGACGGTATTCCCCGGCCCCTGGTCGCGGGGCAGGTTATAAATTTTTTTTTAATGGAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCa                                                                                           <  2:1040593/138‑1 (MQ=255)
                                                 ttttttCACTTTCGACTTCAAGCGAGACGGTATTCCCCGCCCCCGGGTCGCGCGGCAGGTTATAAATTTTTTGTTCAGGAAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCa                                                                                           <  2:154335/138‑1 (MQ=255)
                                                                   aaaGGGAGAGGGTCTTCCCCGCCCCCTGGTCGCGGGGGAGGTTATAAATTTTCTGTTCA‑GGAGGGAAAAACCC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCa                                                                         <  2:728961/139‑1 (MQ=255)
                                                                   aaaGCGAGACGGTATCCCCCGGCCCCTGGCCGCGGGGCAGTTTATGAATATTTTGTTCAGGCAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCa                                                                         <  2:1295426/139‑1 (MQ=255)
                                                                               tATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGcaca                                                             >  2:1021712/1‑140 (MQ=255)
                                                                                    cccGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGtt                                                        >  1:297529/1‑140 (MQ=255)
                                                                                     ccGGCCCCTGGTCGCGCGGCAGTTTATAAATATTCTTTTCATGCAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTc                                                       <  2:1241161/140‑1 (MQ=255)
                                                                                         ccccTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCcgc                                                   >  1:1562847/1‑140 (MQ=255)
                                                                                         ccccTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCcgc                                                   >  1:647640/1‑140 (MQ=255)
                                                                                         ccccTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCcgc                                                   >  1:194283/1‑140 (MQ=255)
                                                                                         ccccTGGTCGCGCGGCAGGTTATAAATTTTCTGTTCATGCAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCcgc                                                   <  1:1252873/140‑1 (MQ=255)
                                                                                                   cgcgGCGGGTTATGAATTTTCTGTTCATGCAGGAAAAAC‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAg                                         <  1:194693/140‑1 (MQ=255)
                                                                                                   cgcgGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAg                                         >  2:1110096/1‑140 (MQ=255)
                                                                                                   cgcgGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAg                                         >  1:839071/1‑140 (MQ=255)
                                                                                                   cgcgGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAg                                         >  1:725143/1‑140 (MQ=255)
                                                                                                        gggtttATGAATTTTCTGTTCAGGAAGGGAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCa                                    <  2:74485/136‑1 (MQ=255)
                                                                                                        gagtttATAAATTTTCTGTTCATGCAGGGAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCa                                    <  2:194283/136‑1 (MQ=255)
                                                                                                        cAGGTTATGAATTTTCTGTTCATGCAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCa                                    <  1:210288/140‑1 (MQ=255)
                                                                                                             tATGAATATTCTGTTCATGCAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGgtg                               <  1:946016/140‑1 (MQ=255)
                                                                                                              aTGAATATTCTGTTAAAGCAGGGAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGgtgt                              <  1:1513510/140‑1 (MQ=255)
                                                                                                                aaaTTTTCTGTTCAGGAAGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTa                            <  2:1562847/139‑1 (MQ=255)
                                                                                                                     ttCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGa                       >  1:657101/1‑140 (MQ=255)
                                                                                                                     ttCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGa                       >  1:549851/1‑140 (MQ=255)
                                                                                                                      tCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGAt                      >  1:433431/1‑140 (MQ=255)
                                                                                                                      tCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGAt                      >  1:1588966/1‑140 (MQ=255)
                                                                                                                         gTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGcc                   >  1:389032/1‑140 (MQ=255)
                                                                                                                          ttCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAAcctgtctc                  >  1:1480806/1‑133 (MQ=255)
                                                                                                                          ttCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAAcctgtctc                  >  1:1193935/1‑133 (MQ=255)
                                                                                                                          ttCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCa                  >  2:1560643/1‑140 (MQ=255)
                                                                                                                          ttCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCa                  >  2:647620/1‑140 (MQ=255)
                                                                                                                             aatgaGGGAAAAC‑CCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACg                <  2:839071/136‑1 (MQ=255)
                                                                                                                                aaGGAAAAAC‑CC‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACGGGCg            <  2:1196529/139‑1 (MQ=255)
                                                                                                                                    gAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACGGGCGAGAc        >  1:1327107/1‑140 (MQ=255)
                                                                                                                                           cT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACGGGCGAGACTTCCGt  <  2:1588966/140‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                           
ACCTCGGCACTGACGCGCTTTTCACCGACGACAAAAAAGCGTTCGGTGATATTTTCACTTTCGACTTCAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CT‑CCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCACAATGTTCCCGCGCTCGCCAAGTTGCAAGGTGTTAAACGATGCCACGGGCGAGACTTCCGT  >  NC_000913/3556068‑3556345

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑