Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24404,291,8400TG42.4% 15.6 / 10.7 33intergenic (‑142/‑20)sdhL/CJ019_04025Shikimate dehydrogenase‑like protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (5/14);  new base G (12/2);  total (17/16)
Fisher's exact test for biased strand distribution p-value = 1.27e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TTGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCGG  >  KT2440/4291709‑4291974
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ttGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGtttt                                                                                                                                       >  2:6635/1‑135 (MQ=255)
                   ttATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATg                                                                                                                   <  1:62493/135‑1 (MQ=255)
                     aTTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCTGACGTGGGGTGTTCC‑TGCGAGGTTGTTTTATGaa                                                                                                                 >  7:186051/1‑135 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCAt                                                                                                       <  7:108625/135‑1 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGC‑TGCGAGGTTGTTTTATGAACCGT‑CTCAt                                                                                                       >  7:73278/1‑135 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTCC‑TGGGAGGGTGTTTTATGAACCGtggca                                                                                                         >  7:204912/1‑130 (MQ=255)
                                 agagTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTcc                                                                                                    <  8:128254/135‑1 (MQ=255)
                                         ccACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGC‑TGGGTGGGTGTTTTTTGTTACGG‑CGCATTGCCGGAGTCg                                                                                            >  5:1231/1‑135 (MQ=255)
                                                       ttACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTGC‑TGCGAGGTTGTTTTTTGAACCGT‑CTCATTGCCGGAATCGTCCTGCTGGTCGGt                                                                              >  7:21526/1‑135 (MQ=255)
                                                          cacaACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGC‑TTCGAGGTGTTTTTTTTAAACGTGTTAATCCCCGGATACGGCGTGGTGGTGGGTGc                                                                            >  1:28135/1‑135 (MQ=255)
                                                                  ttACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTAC‑TGCGCGGTTGTTTTATTTACCGT‑CGCCTTCACCGCCTCGGCCGGCTGGTCGGTGGCCGGGGCag                                                                   >  8:86534/1‑134 (MQ=255)
                                                                    aCCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATc                                                                  <  7:154477/134‑1 (MQ=255)
                                                                     ccGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTGTGC‑TGGGAGGGTGGTTTTTGAACCGG‑CTCCGTCCCCGGATCGTACTGCAGGGCGCTTCCCAGGCCacccg                                                                >  2:80168/1‑131 (MQ=255)
                                                                             cTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTTC‑GGCGAGGTTGTTTTATTAACCGT‑CTCATTCCCGGAATAGTCCTGCTGGTCGGTGCCCAGGCCCTCAGCGGGCCTg                                                        >  4:105975/1‑135 (MQ=255)
                                                                             cTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGC‑TGCGAGGTTGTTTTTTTAACCGT‑CTCATTCCCGGCATCGTGCTGCGGGTCGGTGGCCGGGCCCTCAGCGGGccgg                                                        >  3:134370/1‑133 (MQ=255)
                                                                                               ggCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTAC‑TGCGAGGTTGTTTTATTAACACT‑CTCATTAACCGAAACGTACTGCTGGTAGGTGACCACTCCATCAGAGGGCCTGCAACACCGCACcgccgc                                       >  4:24454/1‑134 (MQ=255)
                                                                                               ggCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGGTTCC‑TGGGAGGGTGTTTTATTGACCGG‑CGACTTGCCGGCATGGTCCTGCTGGTCGGTGCCCGGGGCCTCCGCGGGGCTGCAGCAGCGGCcggcgg                                        >  3:74844/1‑133 (MQ=255)
                                                                                                    gAGTCATAGTAACTGGGCCCCGGACGTGGGGGTTTGC‑TGCGAGGTTGTTTTTTTAACCGT‑CTCATTCCCGGAATCGTGCTGCTGGTCGGTGCCCGGGCCCTCAGCCGGCCGGCCGCAGCGCCCGGCGGCGATggc                                 >  1:115080/1‑135 (MQ=255)
                                                                                                     aGTCATAGTAACAGGGCCCCGGAGTTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTTGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGTCTATggcg                                <  7:160091/135‑1 (MQ=255)
                                                                                                      gTCATAGTAACAGGGCCCCGGACGGGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATggcgg                               <  8:204912/135‑1 (MQ=255)
                                                                                                       tCATAGTAACAGGGCCCCGGACGTGGGGTTTTGC‑TGCGAGGTTGTTTTATTAACCGT‑CTCATTCCCGGAATAGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCCCCCGGCGGCTATggcggc                              >  3:95029/1‑135 (MQ=255)
                                                                                                             tAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATggg                        <  5:9389/135‑1 (MQ=255)
                                                                                                              aaCAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGc                       <  5:51922/135‑1 (MQ=255)
                                                                                                               accggggCCCGGGCGGGGGGGTTTCCGTGGTTGGTGGTTTAATCACCCGC‑CCCATACCCGGAATCGTCCTGCTGGGCGGGGCCCTGGCCAGCCGCGGGCCGGCAGCACCGCACGGCGGCTATGGCGGCCATGGGc                       <  1:80168/132‑1 (MQ=255)
                                                                                                                  gggCCCCGGACGTGGGGTTTTGC‑TGCGAGGGTGGTTTTTGAAACGT‑CTCATTCCCGGAATAGGCCTGCGGGTCGGGGCCCAGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCGATTGCGGGCATGGGccttg                   >  2:26898/1‑131 (MQ=255)
                                                                                                                  gggCCCCGGACGTGGGGGGTTGG‑GGGGCGGGTGTTTTTTTTACCGT‑GTCATTCCCGGAATCGTCCTGCGGGTCGGTGCCCTGGCCCTCAGCGGGGCGGCCGCCGCGCCCCGCGGCGTTGGCGGCCCTGGGccggg                   >  6:83957/1‑131 (MQ=255)
                                                                                                                   ggCCCCGGACGTGGGGGTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCAtggt                  <  3:111420/135‑1 (MQ=255)
                                                                                                                        ctgACGTTGGGGTTTAA‑TGCGAGTTTGTTTTATTAACCGT‑ATCATTAAAGGAATAGTCCTGCTTGTCGTTGGAAATGCCATCAGCTTGCCAGACACAGCGCACCGCGGCGATGGCGGCCATGGGCAtggtgggtt             >  8:33250/3‑132 (MQ=255)
                                                                                                                        cGGAGGTGGGGTTTTCG‑TGAGAGGTTGTTTTATGAACCGT‑CTCTTTCCCGGATTCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCTTGGGCATGGtggttg             <  5:33451/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  7:36675/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  1:88832/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTGTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCTGAATAGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  7:33250/135‑1 (MQ=255)
                                                                                                                                  gTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCg   <  3:95542/135‑1 (MQ=255)
                                                                                                                                  gTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCg   <  8:186051/135‑1 (MQ=255)
                                                                                                                                   ttttCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGGCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCgg  <  2:86464/135‑1 (MQ=255)
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TTGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCC‑TGCGAGGTTGTTTTATGAACCGT‑CTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCGG  >  KT2440/4291709‑4291974

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑