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.

TTGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCGG  >  KT2440/4291709‑4291974
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ttGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGtttt                                                                                                                                       >  2:6635/1‑135 (MQ=255)
                   ttATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATg                                                                                                                   <  1:62493/135‑1 (MQ=255)
                     aTTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCTGACGTGGGGTGTTCCTGCGAGGTTGTTTTATGaa                                                                                                                 >  7:186051/1‑135 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCAt                                                                                                       <  7:108625/135‑1 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGCTGCGAGGTTGTTTTATGAACCGTCTCAt                                                                                                       >  7:73278/1‑135 (MQ=255)
                              aaCAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTCCTGGGAGGGTGTTTTATGAACCGtggca                                                                                                         >  7:204912/1‑130 (MQ=255)
                                 agagTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTcc                                                                                                    <  8:128254/135‑1 (MQ=255)
                                         ccACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGCTGGGTGGGTGTTTTTTGTTACGGCGCATTGCCGGAGTCg                                                                                            >  5:1231/1‑135 (MQ=255)
                                                       ttACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTGCTGCGAGGTTGTTTTTTGAACCGTCTCATTGCCGGAATCGTCCTGCTGGTCGGt                                                                              >  7:21526/1‑135 (MQ=255)
                                                          cacaACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGCTTCGAGGTGTTTTTTTTAAACGTGTTAATCCCCGGATACGGCGTGGTGGTGGGTGc                                                                            >  1:28135/1‑135 (MQ=255)
                                                                  ttACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTACTGCGCGGTTGTTTTATTTACCGTCGCCTTCACCGCCTCGGCCGGCTGGTCGGTGGCCGGGGCag                                                                   >  8:86534/1‑134 (MQ=255)
                                                                    aCCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATc                                                                  <  7:154477/134‑1 (MQ=255)
                                                                     ccGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTGTGCTGGGAGGGTGGTTTTTGAACCGGCTCCGTCCCCGGATCGTACTGCAGGGCGCTTCCCAGGCCacccg                                                                >  2:80168/1‑131 (MQ=255)
                                                                             cTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTTCGGCGAGGTTGTTTTATTAACCGTCTCATTCCCGGAATAGTCCTGCTGGTCGGTGCCCAGGCCCTCAGCGGGCCTg                                                        >  4:105975/1‑135 (MQ=255)
                                                                             cTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTGCTGCGAGGTTGTTTTTTTAACCGTCTCATTCCCGGCATCGTGCTGCGGGTCGGTGGCCGGGCCCTCAGCGGGccgg                                                        >  3:134370/1‑133 (MQ=255)
                                                                                               ggCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGTTTACTGCGAGGTTGTTTTATTAACACTCTCATTAACCGAAACGTACTGCTGGTAGGTGACCACTCCATCAGAGGGCCTGCAACACCGCACcgccgc                                       >  4:24454/1‑134 (MQ=255)
                                                                                               ggCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGGGTTCCTGGGAGGGTGTTTTATTGACCGGCGACTTGCCGGCATGGTCCTGCTGGTCGGTGCCCGGGGCCTCCGCGGGGCTGCAGCAGCGGCcggcgg                                        >  3:74844/1‑133 (MQ=255)
                                                                                                    gAGTCATAGTAACTGGGCCCCGGACGTGGGGGTTTGCTGCGAGGTTGTTTTTTTAACCGTCTCATTCCCGGAATCGTGCTGCTGGTCGGTGCCCGGGCCCTCAGCCGGCCGGCCGCAGCGCCCGGCGGCGATggc                                 >  1:115080/1‑135 (MQ=255)
                                                                                                     aGTCATAGTAACAGGGCCCCGGAGTTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTTGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGTCTATggcg                                <  7:160091/135‑1 (MQ=255)
                                                                                                      gTCATAGTAACAGGGCCCCGGACGGGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATggcgg                               <  8:204912/135‑1 (MQ=255)
                                                                                                       tCATAGTAACAGGGCCCCGGACGTGGGGTTTTGCTGCGAGGTTGTTTTATTAACCGTCTCATTCCCGGAATAGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCCCCCGGCGGCTATggcggc                              >  3:95029/1‑135 (MQ=255)
                                                                                                             tAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATggg                        <  5:9389/135‑1 (MQ=255)
                                                                                                              aaCAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGc                       <  5:51922/135‑1 (MQ=255)
                                                                                                               accggggCCCGGGCGGGGGGGTTTCCGTGGTTGGTGGTTTAATCACCCGCCCCATACCCGGAATCGTCCTGCTGGGCGGGGCCCTGGCCAGCCGCGGGCCGGCAGCACCGCACGGCGGCTATGGCGGCCATGGGc                       <  1:80168/132‑1 (MQ=255)
                                                                                                                  gggCCCCGGACGTGGGGTTTTGCTGCGAGGGTGGTTTTTGAAACGTCTCATTCCCGGAATAGGCCTGCGGGTCGGGGCCCAGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCGATTGCGGGCATGGGccttg                   >  2:26898/1‑131 (MQ=255)
                                                                                                                  gggCCCCGGACGTGGGGGGTTGGGGGGCGGGTGTTTTTTTTACCGTGTCATTCCCGGAATCGTCCTGCGGGTCGGTGCCCTGGCCCTCAGCGGGGCGGCCGCCGCGCCCCGCGGCGTTGGCGGCCCTGGGccggg                   >  6:83957/1‑131 (MQ=255)
                                                                                                                   ggCCCCGGACGTGGGGGTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCAtggt                  <  3:111420/135‑1 (MQ=255)
                                                                                                                        ctgACGTTGGGGTTTAATGCGAGTTTGTTTTATTAACCGTATCATTAAAGGAATAGTCCTGCTTGTCGTTGGAAATGCCATCAGCTTGCCAGACACAGCGCACCGCGGCGATGGCGGCCATGGGCAtggtgggtt             >  8:33250/3‑132 (MQ=255)
                                                                                                                        cGGAGGTGGGGTTTTCGTGAGAGGTTGTTTTATGAACCGTCTCTTTCCCGGATTCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCTTGGGCATGGtggttg             <  5:33451/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  7:36675/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  1:88832/135‑1 (MQ=255)
                                                                                                                        cGGACGTGGGGTGTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCTGAATAGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGtggttg             <  7:33250/135‑1 (MQ=255)
                                                                                                                                  gTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCg   <  3:95542/135‑1 (MQ=255)
                                                                                                                                  gTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCg   <  8:186051/135‑1 (MQ=255)
                                                                                                                                   ttttCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGGCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCgg  <  2:86464/135‑1 (MQ=255)
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TTGGTCATGACTGAAACGTTTATTCAGCGTAACAGAGTCAGCCACTGGTCGTCCCTTACACAACCTTTACCGTTCCCCTGTGCTCAGCTGACAGAGGCCGGAGTCATAGTAACAGGGCCCCGGACGTGGGGTTTTCCTGCGAGGTTGTTTTATGAACCGTCTCATTCCCGGAATCGTCCTGCTGGTCGGTGCCCTGGCCATCAGCGGGCCTGCAGCAGCGCACGGCGGCTATGGCGGCCATGGGCATGGTGGTTGGTATGGGCCGG  >  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: