Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP016816202,4860T.55.1% 141.5 / inf 175intergenic (+264/‑411)JCVSYN2_00840/JCVSYN2_00845hypothetical protein/lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (12/58);  new base . (43/43);  total (69/106)
Fisher's exact test for biased strand distribution p-value = 2.09e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.66e-03

Only 100 of 191 total aligned reads displayed.

AGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCTTTTAAAAAAT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATATAATAC  >  CP016816/202359‑202612
                                                                                                                                   |                                                                                                                               
aGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCtt                                                                                                                                 <  2:1596461/128‑1 (MQ=255)
aGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCtt                                                                                                                                 <  2:218485/128‑1 (MQ=255)
            taataTACTTAAGGTTAATTAAAAAAACAAAAAA‑ATAAAAAATAAAATAAATTACAACCTCGTTATC‑TATTTTTTTATTTTTTTAT‑CTTAACAAAAAAAAAAA‑AAACAATCCCC‑‑ttaaaaatt‑aaaaa                                                                                                                  <  2:274761/128‑1 (MQ=255)
              ataGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTAATC‑TATTTATTTATTTCTTTAT‑ATTCACAAATAAAAAAA‑AAAAAAAACAC‑‑taaaaaaat‑aaaaaaa                                                                                                                >  1:350486/1‑128 (MQ=255)
               taGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCAAC‑‑TTAAAAATT‑aaaaaaaa                                                                                                               >  2:1680811/1‑128 (MQ=255)
                  agTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAATCACC‑‑TTAAAAATT‑aaaaaaaaaaa                                                                                                            >  2:456729/1‑128 (MQ=255)
                   gTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCTTGATC‑TATTTTTTTATTTTTTTAT‑CTTCACAAATAAAAAAA‑AAACAATAAC‑‑AATAAAAAAT‑aaaaaaaaaaaa                                                                                                           >  2:1843420/1‑128 (MQ=255)
                    ttatagTTATTTAAATTAACATAAAA‑TTAAAAATTCATAAAATTTACTACCTCCTGTTA‑TATATTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaa                                                                                                          <  2:1014160/123‑1 (MQ=255)
                     tAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCTTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAATCAC‑‑AATAAAAATT‑aaaaaaaaaaaaaa                                                                                                         >  1:929048/1‑128 (MQ=255)
                     tAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAAT‑AAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaa                                                                                                        >  2:1586800/1‑128 (MQ=255)
                      aatgTTAATTAAAATACAATAAAT‑TTAATAATTCTTATAATGTATATCCTCGTTTTT‑TATTTTTTTATTTTTTTAT‑ATTAAAAAATAAAAAAA‑AAAAAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaa                                                                                                        <  1:1685004/125‑1 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCTTGATC‑TATTATTTTATTAGTTTAT‑ATTAACAAATAAAAAAA‑AAACAAACAAATAaaaaaaaaa‑aaaaaaaaaaaaa                                                                                                          >  1:564032/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCTTGATC‑TATATATTTATTTGTTAAT‑CTTCACAAATAAAAAAA‑AAACAAACCCC‑‑‑AAAAAAAT‑aaaaaaaaaaaaaaaa                                                                                                       >  2:1491770/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCTT‑‑‑AAAAAT‑aaaaaaaaaaaaaaaa                                                                                                       >  2:1520025/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaa                                                                                                        >  1:1574618/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAAATCAC‑‑CTAAAAAAT‑taaaaaaaaaaaaaa                                                                                                        >  1:703673/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAAAGTAGATCATCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAAACACC‑‑TAAAAAAAT‑aaaaaaaaaaaaaaa                                                                                                        >  1:1516303/1‑128 (MQ=255)
                       aGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCAC‑‑AATAAAAATT‑aaaaaaaaaaaaaaaa                                                                                                       >  1:227837/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAATAAACAATCCCC‑‑ATAAAAATT‑aaaaaaaaaaaaaaaa                                                                                                       >  1:224989/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaa                                                                                                      >  1:650679/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaa                                                                                                      >  1:1659166/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑‑TAAAAAAT‑aaaaaaaaaaaaaaaaaa                                                                                                     >  1:840035/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCAAT‑‑‑AAAAAT‑aaaaaaaaaaaaaaaaac                                                                                                     >  2:1285010/1‑127 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATACAATT‑‑‑AAAAAT‑aaaaaaaaaaaaaaaaaa                                                                                                     >  2:174031/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCACGTGATC‑TATTTTTTTATTTGTTAAT‑CTTCACAAATAAAAAAA‑AAAAAAAACCC‑‑ATAAAAAAT‑aaaaaaaaaaaaaaaaa                                                                                                      >  1:1299531/1‑128 (MQ=255)
                         ttactataaAATACCAAAAAA‑TTTATAAATGTTATTATCTCTCTCCCCG‑GTTCTTATTTTTTTTATTTTTTTT‑CTTAAAAAAAAAAAAAA‑AAAAAAACCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaaa                                                                                                     <  1:1011096/122‑1 (MQ=255)
                         gTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaaa                                                                                                     >  1:247072/1‑128 (MQ=255)
                          ttttataaAATAACATAAAT‑TTATAAATTCTTATAAAGTATATCCTTGTGATT‑TATTTTTTTTTTTTTTTTA‑ATTTACAAAAAAAAAAA‑AAAAAATCCCCTTT‑‑AAAATT‑aaaaaaaaaaaaaaaaact                                                                                                    <  1:1374934/123‑3 (MQ=255)
                          ttaattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaaaa                                                                                                    >  2:1815945/1‑128 (MQ=255)
                          ttaattaaAATAACATAAACATTATTATTTATTTTATTTTTGAT‑ATCTTGTTT‑TATTTTTTTATTTGTTTTT‑TTTTAAAAAAAAAAAAA‑AAACAAACCCCTTATAAATTAa‑aaaaaaaaaaaaaaaaa                                                                                                      <  2:1640717/128‑1 (MQ=255)
                           taattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAAACACCTT‑‑‑AAAAAT‑aaaaaaaaaaaaaaaaaaaaa                                                                                                  >  1:610438/1‑128 (MQ=255)
                           taattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAAACACC‑‑‑TAAAAAAT‑taaaaaaaaaaaaaaaaaaaa                                                                                                  >  1:416823/1‑128 (MQ=255)
                           taattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAATCAC‑‑ATTAAAAATT‑aaaaaaaaaaaaaaaaaaaa                                                                                                   >  2:1561882/1‑128 (MQ=255)
                           taattaaAATACCAAAAAC‑TTAATAATTATTATAATGTAGATCCTCTTGATC‑TATTTTATTATATTATTAT‑CTTAAAAAATAAAAAAA‑AAAAAATAAAC‑‑TTAAAAAAT‑aaaaaaaaaaaaaaaaaaaa                                                                                                   >  2:438691/1‑128 (MQ=255)
                            aattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAAAAAAACC‑‑ATTAAAAATT‑aaaaaaaaaaaaaaaaaaaaa                                                                                                  >  1:968105/1‑128 (MQ=255)
                            aattaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATACTCTTTATA‑TATTTTTTAATATTTTTAT‑CTTAACAAATAAAAAAA‑AAACAAACACAATaaaaaaaaa‑aaaaaaaaaaaaaaaaaaa                                                                                                    >  2:117230/1‑128 (MQ=255)
                            aattaaAATACCATAAAC‑TTAAAAATTCTTAAAATGTAGATCCTCGTTATC‑TATTTAATTATATGAATAA‑CTTCACAAAAAAAAAAA‑AAACAAAACC‑‑AAAAAAAATT‑aaaaaaaaaaaaaaaaaacaa                                                                                                  >  1:1403072/1‑128 (MQ=255)
                             attaaAATACCATAAAC‑TTAATAATTCTTATAATGTATATCCTCTTGATC‑TATTATTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAAACCC‑‑ATTAAAAATT‑aaaaaaaaaaaaaaaaaaaaaa                                                                                                 >  2:1179874/1‑127 (MQ=255)
                              ttaaAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAATAA‑AAACAATCCCCTTAAAAATTAT‑aaaaaaaaaaaaaaaaaaata                                                                                                  >  1:1831909/1‑126 (MQ=255)
                                aaaaTAACATAAAA‑TTAATAATTAATATAATTTATAACATATTTATA‑TATTTTTTTTTTTTTTTAA‑CTTAAAAAAAAAAAAAA‑AAAAAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaactaaaaaca                                                                                              <  2:243308/128‑10 (MQ=255)
                                 aaaTAACATAAAA‑TTAAAAATAATTAAAATTTAGAACCTCGTTATC‑TATTTTTTTATTTTTTTAA‑CTTCAAAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑aaaaaaaaaaaaaaaaaaactaaaaa                                                                                             <  2:234050/128‑8 (MQ=255)
                                  aaaaCCAAAAAA‑TTAAAAATATATAAAATTTATATCCTCCGTCTC‑TATTTTTTTTTTTTTTTTT‑ATTTACAAAAAAAAAAA‑AAAAAATTCCCCTT‑‑AAAATT‑AAAAAAAAAAAAAAAAAAAAACTaaaa                                                                                            <  2:1198401/125‑1 (MQ=255)
                                  aaTACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑Aaaaaaaaaaaaaaaaaaaaaaaaaaa                                                                                            >  2:1667920/1‑128 (MQ=255)
                                  aaTACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑Aaaaaaaaaaaaaaaaaaaaaaaaaaa                                                                                            >  1:1865492/1‑128 (MQ=255)
                                  aaTACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCC‑‑ATTAAAAATT‑Aaaaaaaaaaaaaaaaaaaaaaaaaaa                                                                                            >  2:1615939/1‑128 (MQ=255)
                                  aaTACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAAACCCC‑‑TTAAAAATT‑Aaaaaaaaaaaaaaaaaaaaaaaaaaa                                                                                            >  1:1052230/1‑128 (MQ=255)
                                      caaTAAAA‑TTAATAAATATTAAAATTTATATAAAAGTTATC‑TATTTTTTTTTTTTTTTAA‑ATTAAAAAATAAAAAAA‑AAAAAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAaaacaa                                                                                        <  2:1647290/126‑1 (MQ=255)
                                      aaaaaaaaaaaaataaaTCTTATAAATTATATCATCTTTATA‑TATTTTTTTATTTTTTTAT‑ATTAACAAATAAAAAAA‑AAA‑AATCCCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAaaacaaa                                                                                       <  2:693429/117‑1 (MQ=255)
                                      aaaTAAAC‑TTAATAATTATTAAAATTTATAAAATTGTTATA‑TATTTTTTTATTTTTTTAA‑AATAAAAAAAAAAAAAA‑AAAAAATCCCCTT‑‑‑AAAAAT‑‑TAAAAAAAAAAAAAAAAAAACTAAaaacaaac                                                                                      <  2:1347007/126‑1 (MQ=255)
                                       cATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAACaaaaaaaaaaaaaa                                                                                       >  1:183768/1‑128 (MQ=255)
                                         tAAAC‑ATTATAAATTTTTTAATTTTCATACTCGGTATC‑TATTTTTTTATTTTTTTAT‑CTTCAAAAATAAAAAAA‑AAAAAAACCCCTT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTa                                                                                  <  1:1564429/128‑1 (MQ=255)
                                           aaaatataaaatTATTATAATTTATATCCACGTGTTA‑TATTTTTTTTTTTTTTTAT‑ATT‑AAAAAAAAAAAAA‑AAAAAAACCCCAT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTa                                                                                  <  1:1739898/119‑1 (MQ=255)
                                            aC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAA‑AAAaaacaaacacaat                                                                                 >  1:1768285/1‑123 (MQ=255)
                                               ttAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAA‑AAAAAACAAACTATAtta                                                                               >  2:205763/1‑127 (MQ=255)
                                                taataaTTTTTAAAATTAATATACTCTTTATA‑TATTTTTTTTTTTTTTTAT‑ATTAAAAAATAAAAAAA‑AAAAAAACCCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTc                                                                              <  2:518838/128‑1 (MQ=255)
                                                taataaTTTATATAATTTATATTCTTGTTTTT‑TATTTTTTTATTTGTTTAT‑TTTAATAAAATAAAAAA‑AAAAAATCCCCTTT‑‑‑AAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCtt                                                                            <  1:179432/128‑1 (MQ=255)
                                                  ataatTATTATAATTTTTATCCTCTTTTTC‑AATTTTTTTATTTTTTTTA‑ATTAAAAAATAAAAAAA‑AAACAAACCCCTT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTaa                                                                          <  2:1879672/128‑1 (MQ=255)
                                                         ttATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAAT‑AAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑AAAAATAAAAAAAAAAAAAAA‑‑AAAAACAAAAACTATTTCTAAAAATTacc                                                                   >  1:1839321/1‑128 (MQ=255)
                                                               tttataTCCTCGTTATA‑TATTTTTTTATTTTTTTAT‑CTTAAAAAATAAAAAAA‑AAA‑AATACCCTT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATtata                                                            <  2:1670407/123‑1 (MQ=255)
                                                                gtacatacgagTGATA‑TAATTTTTTATTTTTTTAT‑CATAAAAAAAAAAAAAA‑AAACAATCCCC‑‑ATAAAAAAT‑‑‑‑AAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATtata                                                            <  2:1275591/118‑1 (MQ=255)
                                                                        aatagttattttttttttatttttttaTAATTAAAAAAAAAAAAAA‑AAAAAAAACCCTTAAAAATTAA‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATAc                                                           <  2:1299531/117‑1 (MQ=255)
                                                                         tttGATT‑TATTTTTTTTTTTTTTTTT‑TTTCACAAATAAAAAAA‑AAAAAAACCACTT‑‑‑AAAAAT‑‑TAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                    <  1:117230/126‑1 (MQ=255)
                                                                         cGTGTTC‑TTTTTTTTTAATTTTTTAT‑CTTAAAAAATAAAAAAA‑AAAAAAACCCCTT‑‑‑AAAAAT‑‑AAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                    <  1:123354/128‑1 (MQ=255)
                                                                          agttatatATTTTTTTATTTGTTTAT‑ATT‑AAAAATAAAAAAA‑AAAAAAAACCCCTT‑‑AAAAAT‑‑TAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                    <  2:1792508/121‑1 (MQ=255)
                                                                           ttatttatttttttttttttttttT‑ATTAAAAAATAAAAAAA‑AAA‑AATACCCATT‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                    <  2:956414/120‑1 (MQ=255)
                                                                            ttttatATTTTTTTTTTTTTTTAT‑ATTTAAAAATAAAAAAA‑AAAAAAAACACTT‑‑‑AAAAAT‑‑AAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttta                                                  <  2:1503473/123‑1 (MQ=255)
                                                                            ttaaatatttttttattttttTAT‑AAT‑AAAAAAAAAAAAA‑AAAAAATACCCTT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatt                                                <  2:386644/123‑1 (MQ=255)
                                                                            taattattttttttATTT‑TTTAA‑ATAAAAAAAAAAAAAAA‑AAAAAAACCC‑‑‑ATAAAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttta                                                  <  2:1884591/121‑1 (MQ=255)
                                                                            attaatatttttttattttttTTT‑ATTAAAAAAAAAAAAAA‑AAAAAAACCAC‑‑ATAAAAAAT‑‑‑AAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttta                                                  <  2:919537/123‑1 (MQ=255)
                                                                              atatATTTTTTTTTTTTTTTTT‑ATTTAAAAATAAAAAAA‑AAAAAATACCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttta                                                  <  1:199456/125‑1 (MQ=255)
                                                                               c‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAATAA‑‑AAAAAAAAA‑‑ATATTTATTAAAATTACATATTAAAACACATTTTATTTTTa                                            >  2:1526049/1‑128 (MQ=255)
                                                                               c‑TATTTTTTTATTTGTTTAT‑ATTAAAAAATAAAAAAA‑AAAAAATACCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttattt                                               <  2:1774141/128‑1 (MQ=255)
                                                                                atatttttttattttttTAT‑ATTAAAAAAAAAAAAAA‑AAAAAAAACCCAT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTAttttt                                             <  2:180226/127‑1 (MQ=255)
                                                                                atATTTTTTTATTTGTTTAA‑ATTAAAAAAAAAAAAAA‑AAAAAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatt                                                <  2:1659166/127‑1 (MQ=255)
                                                                                 tATTTTTTTTTTTTTTTAT‑ATTCACAAAAAAAAAAA‑AAACAAACTCATT‑‑‑AAAAAT‑TTAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAACTTCCCTATTATACCACattttatttt                                              <  2:641055/128‑1 (MQ=255)
                                                                                  ttttttttatttttttaT‑TTTCA‑AAAAAAAAAAA‑AAAAAATACCC‑‑ATAAAAAAT‑‑AAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTa                                            <  1:1505827/127‑1 (MQ=255)
                                                                                   tttttttatttttttaT‑ATTAAAAAAAAAAAAAA‑AAAAAAACCAC‑ATAAAAATTA‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatttt                                              <  1:434935/128‑1 (MQ=255)
                                                                                      ttttttttttttAT‑ATTAACAAATAAAAAAA‑AAAAAATTCACTT‑‑‑AAAAAT‑‑‑TAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATa                                       <  1:1610217/128‑1 (MQ=255)
                                                                                       ttttttttttttT‑CTTAAAAAATTAAAAAA‑AAACAATTCACTTT‑‑‑AAAAT‑‑TAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATa                                       <  2:1378/128‑1 (MQ=255)
                                                                                       tttATTTTTTTAA‑ATAAAAAAATAAAAAAA‑AAACAATACCCTT‑‑‑AAAAAT‑‑AAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATa                                       <  2:1371173/128‑1 (MQ=255)
                                                                                       tttATTTTGTTTT‑ATTCAAAAATAAAAAAA‑AAAAAAT‑‑ACATTT‑AAAATT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAAt                                        <  1:1705168/128‑1 (MQ=255)
                                                                                       tttATTTGTTTAT‑CTTCACAAATAAAAAAA‑AACCAATCCCC‑‑‑TAAAAAAT‑TAAAAAAAAAAAAAAAAAAA‑‑TAAAAAAAAAAACAATTTCATAAAAATCACAATAAAACCCCAATTAATTTTTAAAATaa                                      >  2:415279/1‑128 (MQ=255)
                                                                                       tttATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAA‑‑TAAAAAAAAAATATTTTTATTAAAAATAAATATTATAAAAAATTTTATTTTTAaaaaaa                                      >  2:111847/1‑128 (MQ=255)
                                                                                        ttATTTTTTTAT‑AATAAAAAATAAAAAAA‑AAAAAAATCCC‑‑TTAAAAAAT‑‑AAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATa                                       <  2:1837148/128‑1 (MQ=255)
                                                                                        ttATTTTTTTAA‑CTTAAAAAATAAAAAAA‑AAAAAAACCCCTT‑‑‑AAAAAT‑‑TAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATaa                                      <  1:1484980/128‑1 (MQ=255)
                                                                                          tttttttTAT‑TTTAAAAAATAAAAAAA‑AAAAAATTCAATT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAAATCCCTATTATACCACATTTTATTTTTAAAATAAg                                     <  1:1667920/127‑1 (MQ=255)
                                                                                           ttttttatt‑CTTCA‑AAATAAAAAAA‑AAATAAATACC‑CTTAAAAAAT‑‑‑‑AAAAAAAAAAAAAAAAAACTATAAACAAACTCTATTTCATAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGata                                  <  2:1037822/120‑1 (MQ=255)
                                                                                               ttttttaaaaaaaaaaaaaaaaa‑aaaaaATCCC‑‑‑TT‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATAtt                                <  1:1022345/116‑1 (MQ=255)
                                                                                               tttAT‑ATTAAAAAAAAAAAAAA‑AAACAATCCCC‑ATAAAAATAA‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGata                                  <  2:631053/128‑1 (MQ=255)
                                                                                                ttAT‑ATTAAAAAAAAAAAAAA‑AAAAAATACCC‑‑ATAAAAAAT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATAtt                                <  2:225618/128‑1 (MQ=255)
                                                                                                 ttaatttaaaaaaaaaaaaaa‑aaaaaATCCC‑‑TTT‑‑AAAAT‑T‑AAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGAc                             <  2:510963/118‑1 (MQ=255)
                                                                                                 ttaattaaaaaaaaaaaaaaa‑aaaaaATCCC‑‑TTT‑AAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTg                               <  2:1436132/118‑1 (MQ=255)
                                                                                                   atattaaaaaaaaaaaaaa‑aaaaaaaACCC‑‑TTAAAAAAT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGa                              <  1:234450/120‑1 (MQ=255)
                                                                                                     ataaacaAAAAAAAAAA‑AAAAAAATCC‑‑ATTAAAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACa                            <  2:1505660/124‑1 (MQ=255)
                                                                                                     aataaaaaaaaaaaaaa‑aaaaaATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACa                            <  2:170357/122‑1 (MQ=255)
                                                                                                        aaaaaaTAAAAAAA‑AAAAAAAAACCA‑‑TAAAAATTAAAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACata                          <  2:1950753/125‑1 (MQ=255)
                                                                                                         aaaaaaaaaaaaa‑aaaaaATCCCATT‑‑‑AAAAAT‑T‑‑AAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATACCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAatata                     <  2:105607/126‑1 (MQ=255)
                                                                                                             aaaaaaaaa‑aaaCAATACCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAatatata                   <  2:1932995/126‑1 (MQ=255)
                                                                                                                     a‑aaaCAATCCCC‑‑TTAAAAATT‑AAAAAAAAAAAAAAAAAAAAAATAAAAACAAAATAAATTTATTAAAATTCCAAATTTAAACACATTTTTTTTTTAAAATAATATATTTACATAatatatataatata            >  2:1894514/1‑122 (MQ=255)
                                                                                                                                aactttAAAAATTAAAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATataa     <  2:830069/125‑1 (MQ=255)
                                                                                                                                   |                                                                                                                               
AGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAAC‑TTAATAATTCTTATAATGTAGATCCTCGTGATC‑TATTTTTTTATTTGTTTAT‑CTTCACAAATAAAAAAA‑AAACAATCCCCTTTTAAAAAAT‑AAAAAAAAAAAAAAAAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATATAATAC  >  CP016816/202359‑202612

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑