Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,286,9650AG24.1% 27.9 / 11.3 34intergenic (+439/+101)narI/rttRnitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
Reads supporting (aligned to +/- strand):  ref base A (15/7);  new base G (3/4);  total (18/16)
Fisher's exact test for biased strand distribution p-value = 3.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.05e-02
Rejected as consensus: Frequency below/above cutoff threshold.

CCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGC  >  NC_000913/1286826‑1287105
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cccGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgtc                                                                                                                                    >  1:209418/1‑148 (MQ=255)
                              tCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAACCTTGGTCGAAGCTTCTCATCCTTccc                                                                                                      <  2:209418/150‑1 (MQ=12)
                                gTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGTCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCg                                                                                                    >  1:1789229/1‑150 (MQ=255)
                                  ttGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCg                                                                                                                                        <  2:288813/112‑1 (MQ=25)
                                  ttGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCg                                                                                                                                        >  1:288813/1‑112 (MQ=25)
                                      gaATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAAcc                                                                                                                               <  1:1379264/117‑1 (MQ=12)
                                      gaATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAAcc                                                                                                                               >  2:1379264/1‑117 (MQ=12)
                                      gaATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATggg                                                                                              >  2:597686/1‑150 (MQ=255)
                                                           ggATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGAtt                                                                         <  1:1680511/149‑1 (MQ=39)
                                                           cgATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGAc                                                                                                                                             <  1:1090872/81‑1 (MQ=14)
                                                           cgATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGAc                                                                                                                                             >  2:1090872/2‑82 (MQ=14)
                                                           cgATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCCAGACGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGAtt                                                                         >  2:1305310/2‑150 (MQ=255)
                                                                  ggtggGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGACGAACCTTAGTCGAAGCTTCTCCTCCTTCCCCCCATGGGCAGAATATTTTATTGCGGATTCggtggt                                                                  >  2:1392023/1‑145 (MQ=11)
                                                                   gtggGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTgag                                                                 <  1:1305310/150‑1 (MQ=255)
                                                                     gggggAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGagag                                                               <  1:918241/150‑1 (MQ=255)
                                                                       gggAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCgg                                                                            <  2:158924/135‑1 (MQ=21)
                                                                          aaGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCTGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAg                                                          >  1:1211879/1‑150 (MQ=255)
                                                                          aaGGATTACTCAGCGCTGCGCGCTTCGCCCTTCCTGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGACGAACCTTAGTCGAAGCTTCTCATCAATCCCCGAAAGGGCAGAATATTTAATTGCGGATTCGATTGAAAGTTCAg                                                          >  2:1044715/1‑150 (MQ=11)
                                                                                 aCTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTTCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTATCATCCTTCCCCGCATGGGCAGAATATTTTATTGCGGATTCGGTTGGTAGTTAAGGGACgtt                                                   >  2:2111187/1‑150 (MQ=11)
                                                                                 aCTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTTATTGCGGATTCGATTGATAGTTCAGGGACttt                                                   >  2:1153743/1‑150 (MQ=255)
                                                                                   tCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTg                                                 <  1:597686/150‑1 (MQ=255)
                                                                                   tCAGCGCTGCGCGCTTCGCCCTTCGGGTAGTTGACTGCTGCAACGCTCTCTCGCGGTCGCGCGCGCCGAACCTTCGTCGACGCTTCTCATCCTTCCCCTAATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTg                                                 <  1:1741847/150‑1 (MQ=14)
                                                                                      gcgcTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGTCGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGaaa                                              <  1:798082/150‑1 (MQ=255)
                                                                                       gggtgtgcgaTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGTCGCTCGAGTCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGATAGTTCAGGGACTTTTGAAAg                                             <  1:1658214/144‑1 (MQ=14)
                                                                                              cgcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGGTTGGGAGGTCAGGGACTTTTGTAAGTGAtggg                                      >  1:460967/1‑149 (MQ=255)
                                                                                               gcTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGCCGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAtggtg                                     <  1:843073/150‑1 (MQ=255)
                                                                                                cTTCGCCCTTCGGGTCGTTTCCAGCGGCAACCCAAAAAAGCAGACGCTCGAGCCGAACCTTAGTAGAATCGTATCAACCATACCCGCATGGGCAGAAAATATTATTTGGGATTAGGTTTTAATTTAAGGGACTTTTGAAATTGAttttgg                                    >  2:1809534/1‑145 (MQ=2)
                                                                                                 ttCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAata                                                                                       >  2:1477476/1‑98 (MQ=40)
                                                                                                    gCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCTGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTggg                                <  2:1211879/150‑1 (MQ=255)
                                                                                                         tCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTTATTGCGGATTCGGTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAg                           >  2:565408/1‑150 (MQ=255)
                                                                                                                   gCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTAcaacc                 >  2:1508629/1‑146 (MQ=255)
                                                                                                                                  ctctcGCTGTCGCTCTAGCCGAACCTTCGTCGAAGCTTCTCATCCTTCCCCGCTTGGGCAGAATCTTTGATTGCGGATTCGCTTGAGAGTTCAGTGACTTTTGAAAGTGATGGTGGTTGGGGAAGGATTACTCAGCGCTGCGCGCTTCGc  <  1:1598447/150‑1 (MQ=14)
                                                                                                                                  ctctcGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGa                                                                                          <  2:1469752/62‑1 (MQ=255)
                                                                                                                                  ctctcGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGa                                                                                          >  1:1469752/1‑62 (MQ=255)
                                                                                                                                           |                                                                                                                                            
CCCGCTTGGGCAGAATATTTGATTGCGGATTCGTTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGC  >  NC_000913/1286826‑1287105

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: ‑