Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,287,0370CT26.5% 37.4 / 16.2 34intergenic (+511/+29)narI/rttRnitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
Reads supporting (aligned to +/- strand):  ref base C (10/15);  new base T (7/2);  total (17/17)
Fisher's exact test for biased strand distribution p-value = 1.18e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.26e-01
Rejected as consensus: Frequency below/above cutoff threshold.

AGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAACCTTGGTCGAA  >  NC_000913/1286911‑1287167
                                                                                                                              |                                                                                                                                  
aGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTccg                                                                                                                        <  1:627135/139‑3 (MQ=255)
       cgcgcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACttt                                                                                                                 >  1:306088/1‑139 (MQ=255)
            ttCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGaaa                                                                                                            <  2:344911/139‑1 (MQ=11)
                cccTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGa                                                                                                        <  1:1104264/139‑1 (MQ=11)
                  cTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAtg                                                                                                      <  2:1113889/139‑1 (MQ=255)
                    tCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGAtggt                                                                                                    >  1:749348/1‑139 (MQ=11)
                      gggTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAtggtgg                                                                                                  <  1:79987/139‑1 (MQ=255)
                      gggTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAtggtgg                                                                                                  <  2:469648/139‑1 (MQ=255)
                           gTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTgggg                                                                                             >  2:853204/1‑139 (MQ=11)
                           gTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTgggg                                                                                             >  2:64428/1‑139 (MQ=11)
                           gTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggg                                                                                              >  1:635868/1‑138 (MQ=11)
                           gTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCACCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTTAAAGTGATGGTGGTggg                                                                                              <  2:635868/138‑1 (MQ=11)
                            ttGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  1:432497/139‑1 (MQ=11)
                            ttGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTggggg                                                                                            <  1:18773/139‑1 (MQ=11)
                                   cGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGAtt                                                                                     >  1:777502/1‑139 (MQ=11)
                                      cAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGAttcga                                                                                  <  1:1041280/139‑4 (MQ=255)
                                           ctctctCGCTGGCGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAgcg                                                                             <  1:853204/139‑1 (MQ=255)
                                               ctcGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCgggg                                                                                                                     <  2:439565/95‑2 (MQ=11)
                                               ctcGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCgggg                                                                                                                     >  1:439565/1‑94 (MQ=11)
                                                      aCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTc                                                                  >  1:1050045/1‑139 (MQ=11)
                                                        gCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGc                                                                <  1:656427/139‑1 (MQ=14)
                                                          tCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGa                                                                                       <  2:71286/114‑1 (MQ=11)
                                                          tCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGa                                                                                       >  1:71286/1‑114 (MQ=11)
                                                                                cTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCaa                                        <  2:1050045/139‑1 (MQ=14)
                                                                                            ccccGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCt                            >  1:148601/1‑139 (MQ=14)
                                                                                             cccGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCCTCAGCGCTGCGCGCTTCTCCCTTCGGGTCGTGGCCTGCGGCAACGCTCTCTCGCTg                           >  2:1041280/1‑139 (MQ=14)
                                                                                                  aTGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTATTCCGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCt                      >  2:79987/1‑139 (MQ=11)
                                                                                                    gggCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGTCTTTTGAAAGTGATGGTGGTGGGGGAAGGAttcgaa                                                                                 <  1:197009/78‑5 (MQ=255)
                                                                                                    gggCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGAttcgaa                                                                                 >  2:197009/1‑74 (MQ=255)
                                                                                                       cAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgc                 >  1:863657/1‑138 (MQ=11)
                                                                                                                    tGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCttaatcg    >  2:801466/1‑134 (MQ=11)
                                                                                                                      cGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGaa  >  2:625562/1‑139 (MQ=11)
                                                                                                                      cGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGAttcga                                                                                  <  2:385861/59‑4 (MQ=255)
                                                                                                                      cGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGAttcga                                                                                  >  1:385861/1‑56 (MQ=255)
                                                                                                                              |                                                                                                                                  
AGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAACCTTGGTCGAA  >  NC_000913/1286911‑1287167

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑