Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24405,384,2730GT34.6% 56.7 / 16.2 52intergenic (+536/‑322)CJ019_05064/CJ019_05067putative protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (9/25);  new base T (18/0);  total (27/25)
Fisher's exact test for biased strand distribution p-value = 1.21e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GATTAAATCAGTAGACACGGCTAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGTTTTAGTCTCGGTGGGTCG  >  KT2440/5384151‑5384405
                                                                                                                          |                                                                                                                                      
aaTTAAATCAGAACACACGGCAAAGCATGTAGTACCGACAGCGGAGTACTGGCGGAGGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTgg                                                                                                                         <  1:199684/136‑1 (MQ=255)
              acacGGCTAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCggggagt                                                                                                           >  6:171523/1‑133 (MQ=255)
              acacGGCTAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTAGTTTTTTTT‑GTCTGGAATTTTTGCGCTGCGGGTCG‑a                                                                                                          >  6:129256/1‑137 (MQ=255)
                   gCTAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCCCCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTGTTTTTTT‑GGAGGGAATTTTGGCGCTGCGGGTCC‑taaaaa                                                                                                     >  4:351437/1‑136 (MQ=255)
                     tAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGTGTTTTTGT‑GGCGGGGAATTTGGAGCGGCGGGTGG‑AAAAATCg                                                                                                   >  4:166673/1‑137 (MQ=255)
                     tAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GGCGGGAATTTGGGGGCGGGGGGGGG‑AAAAAtag                                                                                                   >  4:152004/1‑135 (MQ=255)
                      aaGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GGCGGGCTTTTTGGCGCTGCGGGGCG‑AAAAAtacg                                                                                                  >  4:164821/1‑134 (MQ=255)
                         cATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCAGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGAtt                                                                                               <  4:167202/137‑1 (MQ=255)
                          aTGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGTTTTTTTGT‑TGGGGGGATTTTGGGGGTGCGGGTGG‑GAAAATAGGAttt                                                                                              >  5:157305/1‑137 (MQ=255)
                          aTGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑TGCGGGTATTTTGTGGCTGGCGGGCG‑AAAAAAAGGAtat                                                                                              >  7:35575/1‑135 (MQ=255)
                            gtagtaCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTaa                                                                                            <  1:62451/137‑1 (MQ=255)
                              cgtaCCGACAGCGGAGAACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAACACGCCCTGGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AATAATCGGATTTAAcc                                                                                          <  6:382088/136‑1 (MQ=255)
                              agtaCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAAcc                                                                                          <  6:273060/137‑1 (MQ=255)
                              agtaCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAAcc                                                                                          <  1:57143/137‑1 (MQ=255)
                              agtaCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAAcc                                                                                          <  1:83489/137‑1 (MQ=255)
                               gtaCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAAccc                                                                                         <  6:455050/137‑1 (MQ=255)
                                 aCCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GGCGGGAAATTGGGCGCTGCGGGTCG‑AAAAAACGCATTTAAcccca                                                                                       >  7:341004/1‑136 (MQ=255)
                                     aCAGCGGAGTACTGGCGGATGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GCCGGGAATTTTTGCGCGGCGGGTGGAAAAAAACGGTTTTAACCCGttct                                                                                    >  5:318211/1‑135 (MQ=255)
                                     aCAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTGT‑TCCGGGAATTTGGGGGCTGGGGGTGG‑AAAAATCGGATTTTAACCCGTTCt                                                                                   >  6:151925/1‑137 (MQ=255)
                                      cAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTTT‑TGCTGGAATTTTGGCGCGGCGGGTCG‑AAAAAAAGGATTTAACACCattatt                                                                                  >  2:9615/1‑137 (MQ=255)
                                      cAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCGCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑TCCGGGGATTTTGGGGGGGCGGGGGG‑GAAAATCGGGTTTTACCCCattagt                                                                                  >  6:414152/1‑134 (MQ=255)
                                        gCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGTTTTTTTTT‑GGCTGGGATTTTGGGGCTGGGGGGGG‑AAAAATCGGATTTTAACCCTGtgttgt                                                                                >  8:136741/1‑137 (MQ=255)
                                        gCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTGT‑GCCGGGCATTTGGGCGCTGCGGGGGG‑AAAAATAGGATTTAACCCCGTTCTTGt                                                                                >  8:133874/1‑137 (MQ=255)
                                        gCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCATCGGGCGTCGTTTTTTTT‑GCCTGGTATTTTTGGGCTGCTGGTGG‑AAATATCGGATTTAAAACCTTtgttgt                                                                                >  6:348506/1‑137 (MQ=255)
                                          ggAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑TGCGGGTATTTTGGGGCTGCGGGGGG‑AAAAATAGGGTTTTACCCCATtttttttt                                                                              >  5:394458/1‑133 (MQ=255)
                                            aGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGGTTTTTTT‑GGGGGGTATTTTGGGGGGGCGGGGGG‑AAAAAAAGGATTTTAACCCATtgttgttgag                                                                            >  8:391117/1‑133 (MQ=255)
                                              tACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCg                                                                          <  3:104436/137‑1 (MQ=255)
                                               aCTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GGCGGGTATTTGGGGGCGGCGGGGGG‑GAAAAACGGATTTAACCCCATTATTGTTgggggg                                                                         >  8:264416/1‑134 (MQ=255)
                                                  ggCGGACGGGGGTTCAAATCCCCCGGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTc                                                                      <  1:345131/137‑1 (MQ=255)
                                                    cGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTGT‑GGCTGGTATTTGGGGGGTGCGGGGGG‑GAAAATAGGATTTTACCCCTTTCTTGTAGGGGGTTTgcc                                                                    >  4:164727/1‑137 (MQ=255)
                                                      gACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTGT‑GGCTGGGATTTGGGGGCTGGGGGGGG‑CAAAAGTGGGTTTTACACCGTTCGTGTTGGGGGGTTGCCac                                                                  >  7:60742/1‑136 (MQ=255)
                                                        ggggggTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAg                                                                <  2:351592/136‑1 (MQ=255)
                                                        cGGGGGTTCTAATCCCACCTGCTCCACCAAATACAAAGATGAAGACGCCCTGGGGCGTCTTTTTTTGT‑GCCTGGAATTTTGGCGCTGCGTGTCG‑AAAAATCTGATTTAACCCCTTTCTTGTAGGGCGTTTCCGAAAg                                                                <  6:374545/137‑1 (MQ=255)
                                                         gggggTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGTTTTTTTTTGGCGTCTAATTTTTCCG‑TGAGGGTCG‑TAAAATACGATTTAAACCCTGTATTTTATAGGGTTTCGCaaaaa                                                               >  4:301028/1‑135 (MQ=255)
                                                           gggTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTTT‑GGGGGGGATTTTGGGGGGGGGGGGGG‑GAAAATGGGGTTTTAACCCCTTGTTGTAGGGGGGTTGCCAAAGAtt                                                             >  2:252071/1‑136 (MQ=255)
                                                               tCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATActgc                                                         <  1:252071/137‑1 (MQ=255)
                                                               tCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGAATTAACCCCTTTCTTGTAGCGCGTTTCCCAAAGATActgc                                                         <  7:326672/137‑1 (MQ=255)
                                                                                caccaAATCCAAAGAAGAAGACGCCCTCGGGCGTCGTTTTTTTT‑TGCTGGAATTTTGGCGGTGCGGGGCG‑AAAAATCGGATTTAACCCCTGTCTTGTAGGGCGTTTGCCAAAGATAAATCATGCGCCTGTTTTCCGt                                        >  6:407272/1‑137 (MQ=255)
                                                                                   caAATCCAAAGAAGAAGACGCCCTCGGGCGTGGGTTTTTTT‑GGGTGGGATTTTGGGGCGGGGGGGGG‑CAAAATAGGTTTTTAACCCGTTGTTGTTGGGGGTGTTCCAAATATACTGACGGGGCCGGTTTTGCGTTgg                                     >  8:41569/1‑136 (MQ=255)
                                                                                   caAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGc                                     <  3:411417/137‑1 (MQ=255)
                                                                                    aaaTCCAAAGAAGAAGACGCCCTCGGGCGTGGTTTTTTGT‑GGCTGGTATTTGGGCGCTGCGGGGGG‑AAAAATAGGGTTTAACCCCTTTCTTGTTGGGCGGTTTGCAAAGATAATGCCTGCGCCGGTTTTACGTTggg                                    >  2:66623/1‑135 (MQ=255)
                                                                                     aaTCGAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTCGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCGCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCgg                                   <  5:129256/137‑1 (MQ=255)
                                                                                     aaTCCAAAGAATAAGACGCCCTCGGGCGTCTGTTTTTGT‑TGCGTGAATTTGGGCGGTGCGGGGCG‑AAAAATAGGTTTTAACCACTTTCTTTTAGGGCGTGTGCCCAACAAAAAGCCTGCCCCGGGTTTCCGTTGCgg                                   >  4:351514/1‑137 (MQ=255)
                                                                                     aaTCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCgg                                   <  1:45576/137‑1 (MQ=255)
                                                                                             taagaagaCGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCTGATTTAACCCCTTTCTTGTAGGGCGGTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCAttttt                           <  3:103547/136‑1 (MQ=255)
                                                                                              aagaagaCGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGAGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCAtttttt                          <  7:391117/137‑1 (MQ=255)
                                                                                                  agaCGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAgg                      <  3:195029/137‑1 (MQ=255)
                                                                                                  agaCGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAgg                      <  1:9615/137‑1 (MQ=255)
                                                                                                     cGCCCTCGGGCGTCTTTTTTTGT‑GACTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGtt                   <  4:35228/137‑1 (MQ=255)
                                                                                                            gggCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGTTTTAGtct            <  7:136741/137‑1 (MQ=255)
                                                                                                                   tttttttGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGTTTTAGTCTCGGTggg     <  8:286205/137‑1 (MQ=255)
                                                                                                                      ttttGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGTTTTAGTCTCGGTGGGTCg  <  6:157305/137‑1 (MQ=255)
                                                                                                                          |                                                                                                                                      
GATTAAATCAGTAGACACGGCTAAGCATGTAGTACCGACAGCGGAGTACTGGCGGACGGGGGTTCAAATCCCCCCGGCTCCACCAAATCCAAAGAAGAAGACGCCCTCGGGCGTCTTTTTTTGT‑GCCTGGAATTTGGGCGCTGCGGGTCG‑AAAAATCGGATTTAACCCCTTTCTTGTAGGGCGTTTCCCAAAGATACTGCCTGCGCCTGTTTTCCGTTGCGGTCATTTTTTCAGGGTTTTAGTCTCGGTGGGTCG  >  KT2440/5384151‑5384405

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: ‑