Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,903,1650AC40.0% 19.2 / 16.8 30intergenic (‑129/‑139)PP_5175/PP_5176HlyD family secretion protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (5/13);  new base C (7/5);  total (12/18)
Fisher's exact test for biased strand distribution p-value = 1.36e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GCGGACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAAT  >  NC_002947/5903018‑5903305
                                                                                                                                                   |                                                                                                                                             
gCGGACGCAGCAACGCCAGGCGGGCTCCTTGCTTGTGCACAAATGATTTGTGGGAGGCGACTGTGAGCGTAGTTCAGGGGTCGATAAACATCACTGACGGGGGCCATGCGGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGa                                                                                                                                               <  7:142315/148‑1 (MQ=255)
  ggACGCATCAACGCCATGCTGGCTCCTTGCTGGTGCACAAATGATTTGTGGGAGGCGACTGTGAGCGTAGGTCAGGGTGCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGc                                                                                                                                             <  5:119307/148‑1 (MQ=255)
    aCGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGGGCGccc                                                                                                                                           >  4:30947/1‑148 (MQ=255)
      gCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGCGCCcg                                                                                                                                          >  5:77943/1‑147 (MQ=255)
         tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGGTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGCGCCCGCGaa                                                                                                                                      <  7:12804/148‑1 (MQ=255)
          cAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAag                                                                                                                                     <  4:154541/148‑1 (MQ=255)
           aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATTATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGCGCCCGCGAaga                                                                                                                                    >  7:7038/1‑148 (MQ=255)
            aCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACCGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCGTTTTTGGTGCCTGCGGGGGCCACTTGGCGGGGGCGCCcgcccagac                                                                                                                                   >  7:62022/1‑142 (MQ=255)
            aCGCCATGCTGGCTCCTTGCTTGGGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGGTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCGCTTCGCGGGCGCGCCCGCGAaga                                                                                                                                    <  7:30935/147‑1 (MQ=255)
            aCGCCATGCGGGCTCCTTGCGTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTGCAGGGGTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGGGGAGGCCTCTTCGCGGGCTCGCCCGCGAaga                                                                                                                                    <  7:74224/147‑1 (MQ=255)
                         tCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGCGCGCCCGCGCAGAGGCCGCCACACCCa                                                                                                                      >  1:147365/1‑148 (MQ=255)
                                ttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCa                                                                                                               <  8:30763/148‑1 (MQ=255)
                                ttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCa                                                                                                               <  7:1585/148‑1 (MQ=255)
                                        aaaTGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGc                                                                                                       >  7:43965/1‑148 (MQ=255)
                                        aaaTGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCAATTAGCGGGGGAGCCCGCGAAGCGGCCTCCCCCCCCATGTATCAGTATCGGc                                                                                                       >  8:80307/1‑148 (MQ=255)
                                                 gtgGGAGGCGCCTGTGCGCGTAGTTCAGGGTTCTATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGGGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCa                                                                                               <  1:59512/147‑1 (MQ=255)
                                                                        ttCTGGGTTCGATAAACATCAGTGAGGGGGGCCAGGCTGGCTTTTTTGGTGCCGGGGGGGGCCTCTGCGCGGGCGAGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATc                                                                       <  1:101842/147‑1 (MQ=255)
                                                                                                 ggggggCCATGCGGGCATTTTTGGGGCCTGGGGGGGCCTCTGCGCGGGCGAGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAg                                             <  2:39915/147‑1 (MQ=255)
                                                                                                    gggCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGa                                          <  3:39686/148‑1 (MQ=255)
                                                                                                     ggCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTACCGGGCGCGCCCGCCCAGAGGCCTCCACAGCCATGTTTAAGTATATGCCATATACAGCAACCAAAAGGCATAGGCCCAACCCCG‑TACAACCGCAACCATTAACAGGGAg                                         >  6:65055/1‑148 (MQ=255)
                                                                                                          tGCTGGCTTTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTca                                    <  8:62022/148‑1 (MQ=255)
                                                                                                             tGGCATTTTTGGTGCGTGCGGGGGCCTGTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTcaca                                  <  2:147365/147‑1 (MQ=255)
                                                                                                                 aTTTTTGGGGCGGGGGGGGGCCTCTGCGCGGGCGCGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCaa                             <  1:162364/148‑1 (MQ=255)
                                                                                                                  tttttGGTGCCGGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGGTCCAACCGCTCCCTATCACAGGGAGGCTCACATTCAAg                            <  8:136994/148‑1 (MQ=255)
                                                                                                                               cGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTTCCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATg               <  7:116515/148‑1 (MQ=255)
                                                                                                                                gggggCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGc              <  6:85455/148‑1 (MQ=255)
                                                                                                                                       tctTCGCGGGCTCGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAACCCATCAGGCCTCGG‑CCATCCCCGTTCCACCCGCTACCTTTCACAGGGCGGCTCCCATTCAAGGAAGATCAAAATGCCGGTAGc       >  6:155000/1‑148 (MQ=255)
                                                                                                                                       tctTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCCTCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGc       >  8:56224/1‑148 (MQ=255)
                                                                                                                                       tctTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGc       >  4:159520/1‑148 (MQ=255)
                                                                                                                                             cgGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGA‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAAt  <  8:105622/147‑1 (MQ=255)
                                                                                                                                                  gAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGtt          >  8:112483/1‑134 (MQ=255)
                                                                                                                                                   aGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTa         <  7:112483/134‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                             
GCGGACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGG‑CCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAAT  >  NC_002947/5903018‑5903305

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: ‑