Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,282,8130TG41.3% 21.2 / 52.2 46intergenic (‑162/+67)PP_2010/PP_2011cytochrome b561/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (12/15);  new base G (8/11);  total (20/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.60e-01
Rejected as consensus: Frequency below/above cutoff threshold.

CAGGTCTGAATGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCGGCATCAGGCA  >  NC_002947/2282668‑2282962
                                                                                                                                                  |                                                                                                                                                     
caGGTCTGAATGGCGCTCTTGCTGGTGAACAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTCGCCTG‑CTCCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCttcc                                                                                                                                                  <  1:447151/150‑3 (MQ=21)
 aGGTCTGAATGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCttcc                                                                                                                                                  <  2:1580668/150‑3 (MQ=255)
 aGGTCTGAATGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCGGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCttcc                                                                                                                                                  <  1:1459077/150‑3 (MQ=255)
         aTGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCtgt                                                                                                                                          <  2:1193067/150‑1 (MQ=255)
         aTGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCAATAAGATTAACCATCGGAAAG‑GAGATGTTGGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCtgt                                                                                                                                          <  1:207157/150‑1 (MQ=16)
            gcgcTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCa                                                                                                                                       <  1:105958/150‑1 (MQ=255)
            gcgcTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCa                                                                                                                                       <  1:1447916/150‑1 (MQ=255)
            gcgcTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCTTCCAAGACTGTGCa                                                                                                                                       <  1:1358113/150‑1 (MQ=38)
               ctctTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGtt                                                                                                                                    <  1:298959/150‑1 (MQ=255)
               ctctTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCTTCCAAGACTGTGCAGtt                                                                                                                                    <  2:1721514/150‑1 (MQ=37)
               ctctTGCGGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGtt                                                                                                                                    <  2:271022/150‑1 (MQ=255)
                  ttGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGa                                                                                                                                 <  2:125024/150‑1 (MQ=255)
                                              gCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGc                                                                                                                   >  2:1305451/1‑136 (MQ=255)
                                              gCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGc                                                                                                                   <  1:1305451/136‑1 (MQ=255)
                                                                 ttGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCttcc                                                                                                                                                  <  1:915875/87‑3 (MQ=255)
                                                                 ttGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCttcc                                                                                                                                                  >  2:915875/1‑85 (MQ=255)
                                                                     gcCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGtt                                                                                                                                    <  2:807425/97‑1 (MQ=255)
                                                                     gcCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGtt                                                                                                                                    >  1:807425/1‑97 (MQ=255)
                                                                               tgAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCTTCCAAGACTGTGCAGtt                                                                                                                                    <  1:502638/87‑1 (MQ=17)
                                                                               tgAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGGCTTCCAAGACTGTGCAGtt                                                                                                                                    >  2:502638/1‑87 (MQ=17)
                                                                                                        cccctTCGCGGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAg                                                                                                                                      <  2:248947/57‑1 (MQ=17)
                                                                                                        cccctTCGCGGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAg                                                                                                                                      >  1:248947/4‑60 (MQ=17)
                                                                                                         ctctTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGACTGTGCAg                                                                                                                                      >  2:1637849/1‑59 (MQ=255)
                                                                                                         ctctTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGACTGTGCAg                                                                                                                                      <  1:1637849/59‑1 (MQ=255)
                                                                                                            ttCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGtc                                                          >  2:214009/1‑132 (MQ=255)
                                                                                                            ttCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGtc                                                          <  1:214009/132‑1 (MQ=255)
                                                                                                                       gCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGcct                             >  2:694013/1‑150 (MQ=255)
                                                                                                                                    gTCCAACTGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCt                                 <  1:734873/133‑1 (MQ=255)
                                                                                                                                    gTCCAACTGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCt                                 >  2:734873/1‑133 (MQ=255)
                                                                                                                                     tCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGTCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCa               >  2:689271/1‑150 (MQ=255)
                                                                                                                                        aaCTGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAg                                                            >  2:792831/1‑102 (MQ=18)
                                                                                                                                        aaCTGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAg                                                            <  1:792831/102‑1 (MQ=18)
                                                                                                                                        aaCTGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCg            >  2:1192052/1‑150 (MQ=37)
                                                                                                                                         aCTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTc                                  >  2:231989/1‑127 (MQ=255)
                                                                                                                                         aCTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTc                                  <  1:231989/127‑1 (MQ=255)
                                                                                                                                           tGCACAGTCTTGGAAGCCTGTGCAGTTGGCCTGTGGGCGAGCCACTCCACGGGCGAATGCCGGAGCAGGGAACTGCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTACCTCCTGCCAGGCACCATCGGCa         >  1:32609/1‑150 (MQ=255)
                                                                                                                                           tGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCAACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGa                                             >  2:1220802/1‑114 (MQ=255)
                                                                                                                                           tGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCAACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGa                                             <  1:1220802/114‑1 (MQ=255)
                                                                                                                                           tGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACAcc                                       >  2:231184/1‑120 (MQ=25)
                                                                                                                                           tGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACAcc                                       <  1:231184/120‑1 (MQ=25)
                                                                                                                                           tGCACAGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCCTTCTGTCTCCTGCCAGGCACCATCAGCa         >  1:602521/1‑150 (MQ=25)
                                                                                                                                             cacaGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCGGCATc       >  1:437726/1‑150 (MQ=255)
                                                                                                                                              acaGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGc                               >  1:534974/1‑125 (MQ=255)
                                                                                                                                              acaGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGc                               <  2:534974/125‑1 (MQ=255)
                                                                                                                                              acaGGCTTCCAAGACTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATcac                                                     <  1:651919/103‑1 (MQ=21)
                                                                                                                                                 gTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCGGCATCAGGc   >  1:789146/1‑150 (MQ=255)
                                                                                                                                                  tCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCGGCATCAGGCa  >  1:269856/1‑150 (MQ=255)
                                                                                                                                                  |                                                                                                                                                     
CAGGTCTGAATGGCGCTCTTGCTGGCGCTCAGGAGTCATTTTAATGGCTACCGGAAACA‑GATCTTTGCGCCAGGTCTGTGAAAAATGTGTTGCCAGCCACCGGCCTCTTCGCTGGCACGCCCGCTCCCACAGTCCAACTGCACAGTCTTGGAAGCCTGTGCAGTTGGACTGTGGGAGCGGGCGTGCCCGCGAAGGGGCCGGAGCAGGCGACATCAGTTACCGGGCAGATAGGGCCAGTCATCACCCACCAGAAACACCCGTTCTGCCTCCTGCCAGGCACCATCGGCATCAGGCA  >  NC_002947/2282668‑2282962

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑