Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP016816202,4860T.56.1% 181.9 / inf 312intergenic (+264/‑411)JCVSYN2_00840/JCVSYN2_00845hypothetical protein/lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (21/95);  new base . (62/86);  total (107/205)
Fisher's exact test for biased strand distribution p-value = 3.30e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.24e-03

Only 100 of 339 total aligned reads displayed.

AGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCCTTTTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATATAA  >  CP016816/202359‑202609
                                                                                                                                 |                                                                                                                            
 tttATTGTAAATAATATAGTTAATGTTAATTAAAATAACATAAACTTAATAAATATTATAATTTATATCCTAGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCACCtta                                                                                                                             <  2:729839/127‑2 (MQ=255)
 tatattgtAAATAAAAGAGTTAAGTTTAATTAAAATAAAATAAACTTATTAATTCTTATAATTTAGATCCTCTTGATCAATT‑TTTTTATTTGTTT‑ATCATCACAAATAAAAAAAAAACAATCCCCtta                                                                                                                             <  2:2292666/123‑2 (MQ=255)
 gTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCCtta                                                                                                                             <  2:2492011/128‑2 (MQ=255)
 gTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCAAAAATAAAAAAAAAAAAATACACtta                                                                                                                             >  2:2778103/1‑127 (MQ=255)
    aGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAAAAATCCCCttaaaa                                                                                                                          >  1:388423/1‑124 (MQ=255)
      tgtAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCAttaaaaat                                                                                                                        >  2:371721/1‑122 (MQ=255)
          aataatAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCACCttaaaaattaaa                                                                                                                    >  2:337825/1‑118 (MQ=255)
          aataatAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAAACCCAttaaaaataaaa                                                                                                                    >  1:2838841/1‑118 (MQ=255)
               taGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCACGTTATCTATT‑ATTTTATTTATTT‑AACTTCACAAATAAAAAAAAAAAAAAACCC‑AAAAAAAAATaaaaaaa                                                                                                              >  1:1803456/1‑128 (MQ=255)
                agagTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAAAAACATT‑‑‑AAAAATaaaaaaaaaa                                                                                                           >  1:663106/1‑128 (MQ=255)
                   gTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATACTCGTGATCTATT‑TTTTAATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATACC‑‑‑ATAAAAAATaaaaaaaaaaaaa                                                                                                        >  2:2645386/1‑128 (MQ=255)
                   gTTAAGGTTAATTAAAATACCATAAACTTAATAATACTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAACAAAAAACCAATCACC‑‑TTAAAAAGTaaaaaaaaaaaa                                                                                                         >  1:2685811/1‑128 (MQ=255)
                    ttAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCAC‑‑TTAAAAATTaaaaaaaaaaaaa                                                                                                        >  2:271236/1‑128 (MQ=255)
                    ttAAGGTTAATTAAAATACCATAAACTTAATAAATCTTATAATTTATATCATCTTTATCTAAT‑TTATTATTTTTTT‑ATCTTCACAAATAAAAAAAAAAAAAAAAC‑‑‑ATAAAAAATaaaaaaaaaaaaaa                                                                                                       >  2:412607/1‑128 (MQ=255)
                     tAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATTTAGATCATATTTATCTATA‑TTATTATTTGTAT‑ATATTCACAAATAAATAAAAAACAATCACC‑‑ATAAAAAATaaaaaaaaaaaaaa                                                                                                       >  2:2055350/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTTTTT‑ATCTTCACAAATAAAAAAAAAACAAACACCTT‑‑‑AAAAATaaaaaaaaaaaaaa‑aa                                                                                                    >  1:1633141/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTtaaaaaaaaaaaaa‑a                                                                                                     >  1:2615315/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTaaaaaaaaaaaaaa‑a                                                                                                     >  2:2539443/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAAACCCC‑‑ATAAAAAATaaaaaaaaaaaaaa‑a                                                                                                     >  1:2784375/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAAAAAAACAATT‑‑‑AAAAATaaaaaaaaaaaaaa‑aa                                                                                                    >  1:1007304/1‑128 (MQ=255)
                      aaGGTTAATTAAAATACCATAAAATTAAAAATTCTTATAATGTATATCCTCGTGATCTAAT‑TATATATATGAAT‑ATATTAACAAATAAAAAAAAAAAAAAAAAC‑‑‑TAAAAAATaaaaaaaaaaaaaa‑aa                                                                                                    >  1:496372/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTATATCCTCTTTATCTATT‑TTTTTATTTTTTT‑ATATTAACAAATAAAAAAAAAAAAAT‑‑‑AAAATAAAAAATaaaaaaaaaaaaaa‑aaaa                                                                                                  >  2:579191/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATAACCaaaaaaaaaaaaaaaaaaaaaaaaa‑a                                                                                                     >  1:1487684/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTA‑ATATTAAAAAAAAAAAAAAAAAAAAAACCCaaaaaaaaaaaaaaaaaaaaaaaaa‑a                                                                                                     >  1:2028399/1‑128 (MQ=255)
                        ggTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATACTCGTGATCTATT‑TTATTATTTGTTA‑ATCTTAACAAATAAAAAAAAAACAATCCAC‑‑‑TAAAAAATtaaaaaaaaaaaaa‑aaaa                                                                                                  >  2:2867253/1‑128 (MQ=255)
                         gtttaataaaataaaaAAAAAATAAAAATTCTAAAAAATTAAATACTCTTTATATATT‑TTTTTAATTTTTT‑AAATTCAAAAAAAAAAAAAAAAAAAACCCC‑‑ATAAAAATTaaaaaaaaaaaaaa‑aaaa                                                                                                  <  2:140350/122‑1 (MQ=255)
                         gTTAATTAAAATACCATAAACTTAATAATTCTTATAATTTAGATCATCTTGATCTATT‑TTTTTATTTTTTT‑ATCTTAACAAATAAAAAAAAAAAAAAAAC‑‑‑ATAAAAAATaaaaaaaaaaaaaa‑aaaaa                                                                                                 >  1:190269/1‑128 (MQ=255)
                         gTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑ATTATATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAAACCAATT‑‑‑AAAAATaaaaaaaaaaaaaa‑aaaaa                                                                                                 >  1:3172399/1‑128 (MQ=255)
                          ttaattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCAC‑‑ATTAAAAATTaaaaaaaaaaaaaa‑aaaaa                                                                                                 >  2:3155066/1‑128 (MQ=255)
                           taattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTaaaaaaaaaaaaaa‑aaaaaa                                                                                                >  1:3026621/1‑128 (MQ=255)
                           taattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCAC‑‑TTAAAAATTaaaaaaaaaaaaaa‑aaaaaa                                                                                                >  2:2819327/1‑128 (MQ=255)
                           taattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAA‑‑‑ACAAATAAAAAATaaaaaaaaaaaaaa‑aaaaaaa                                                                                               >  2:2108083/1‑128 (MQ=255)
                           taattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTAGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTaaaaaaaaaaaaaa‑aaaaac                                                                                                >  1:761257/1‑127 (MQ=255)
                            aattaaAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTAAT‑TATATATATATTA‑ATCTTCACAAAAAAAAAAAAAAAAATCAAC‑‑TTAAAAAATaaaaaaaaaaaaaa‑aaaaaaa                                                                                               >  1:928418/1‑128 (MQ=255)
                            aattaaAATACCATAAAATTAATAATTCTTATAATGTAGATCCTCTTGATCTATT‑TATTTAATTGTTT‑ATCTTCAAAAATAAAAAAAAAACAATACCATTAAAAATaaaaaaaaaaaaaaaaa‑aaaaa                                                                                                 >  2:2731135/1‑128 (MQ=255)
                            aattaaAAAAAAATTAAATTAATAATTCTTAAAATGTATATCCTCGTGATATATT‑TTTTTATTTTTTT‑ATCATAAAAAAAAAAAAAAAAAAAAACCCC‑‑TTAAAAATTaaaaaaaaaaaaaa‑aaaaaaa                                                                                               <  2:2753615/128‑1 (MQ=255)
                             attaaAAAAAAATAAAATTAAAAATTCTTATAATTTATAAAATCGTTATATTTT‑TTTTTATTTTTTT‑ATCTTCAAAAAAAAAAAAAAAACAATCCCC‑‑TTAAAAATTaaaaaaaaaaaaaa‑aaactaaa                                                                                              <  2:145862/128‑6 (MQ=255)
                                aaaaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCC‑‑ATTAAAAATTaaaaaaaaaaaaaa‑aaaaaaaaaaa                                                                                           >  1:2561127/1‑124 (MQ=255)
                                 aaaaaacATAAAAATAAAAATTATTATAATTTATAACCTCGTTATATATT‑TTTTTATTTTTTT‑ATATTAAAAAAAAAAAAAAAAAAAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTaaa                                                                                          <  1:2759442/122‑1 (MQ=255)
                                 aaaTAACATAAAATTAAAAATTTTTATAATGTTTTACATGGGGTTTTATTATTTTTATTTTTTT‑TTTTACA‑AAAAAAAAAAAAAACAAACCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTaaa                                                                                          <  1:2476516/128‑1 (MQ=255)
                                 aaaTAACATAAAATTAAAAATTATTATAATTTTTTACCTCGTGATTTTTT‑TTTTTATTTGTTT‑ATTTTAAAAAAAAAAAAAAAAAAAATACCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTaaa                                                                                          <  2:2572776/128‑1 (MQ=255)
                                  aaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTTTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTAaaaaaaaaaaaaa‑aaaaaaaaaaaaa                                                                                         >  2:2940149/1‑128 (MQ=255)
                                  aaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTAaaaaaaaaaaaaa‑aaaaaaaaaaaaa                                                                                         >  2:2422444/1‑128 (MQ=255)
                                  aaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATACCC‑‑TTAAAAATTAaaaaaaaaaaaaa‑aaaaaaaaaaaaa                                                                                         >  2:317193/1‑128 (MQ=255)
                                  aaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑ATTTTATTTGTTT‑ATCTTCACAATTAAAAAAAAAACAATCCCC‑‑TTAAAAATTAaaaaaaaaaaaaa‑aaaaaaaaaaaaa                                                                                         >  1:2541369/1‑128 (MQ=255)
                                  aaTACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑ATTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCAC‑‑ATTAAAAATTAaaaaaaaaaaaaa‑aaaaaaaaaaaaa                                                                                         >  2:782610/1‑128 (MQ=255)
                                   aaaacataaacataaaAATTCTTAAAATTTAGATCATCTTTTTATATT‑TTTTTATTTTTTT‑ATCTTAAAAAAAAAAAAAAAAAAAAACCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTaaaaa                                                                                        <  1:1104681/124‑1 (MQ=255)
                                    tacaaaaaaaTTAAAAATTTTTATAATTTATATACTCTTTTTTTATT‑TTTTTATTTTTTT‑ATATTAAAAAAAAAAAAAAAAAAAAAACCC‑CTTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTaaaaa                                                                                        <  1:1134689/122‑1 (MQ=255)
                                    taacATAAAATTAAAAATTCTTATAATTTATAATATCTTGCTCTATT‑TTTTTATTTGTTT‑ATATTAAAAAAAAAAAAAAAAAAAATCCCCTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAaaaca                                                                                      <  2:1487744/125‑1 (MQ=255)
                                    tACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAAATAAaaac                                                                                       >  1:3063722/1‑128 (MQ=255)
                                      caaaaaaCTTAAAAAATTTTAAAATTTTTTTCCACGTGAATTATT‑TTTTTATTTTTTT‑ATATTAAAAAAAAAAAAAAAAAAAATCCCC‑TAAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAaaaca                                                                                      <  1:703272/124‑1 (MQ=255)
                                       cATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCC‑‑ATTAAAAATTAAAAAAAAAAAAAATAAAAAAAAAAAaaacaa                                                                                     >  1:1575779/1‑128 (MQ=255)
                                            aattAATAATTATTATAATTTAATAACTCTTTATATATT‑TTTTTTATTTTTT‑ATATATAAAAAAAAAAAAAAAAAAATCCCCTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTAt                                                                              <  2:518869/126‑1 (MQ=255)
                                            aattAAAAATTCATAAAATTTATATTCACGTGATTTTTT‑TTTTTTTTTTTTT‑ATCTTCAAAAAAAAAAAAAAAAAAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTa                                                                               <  1:1675869/126‑1 (MQ=255)
                                                      tCTTATAATGTTGATCCTAGTTATCTATT‑TTTTTATTTTTTT‑ATATTAACAAATAAAAAAAAAACAATCCCCAT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAAt                                                                    <  2:2904223/128‑1 (MQ=255)
                                                               gTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTAAAAATAAAAAAAA‑AAAAAAA‑TAAAAACAAAAATTATATATTAAAAtgacatatat                                                           >  2:2395253/1‑119 (MQ=255)
                                                                   ttattatttatatatt‑tttttattttttT‑ATAATAAAAAAAAAAAAAAAAAAAATCCCC‑‑ATAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATAc                                                        <  2:182510/116‑1 (MQ=255)
                                                                   atactagttttatatt‑tttttattttttT‑ATATTAACAAAAAAAAAAAAAAAAAAAACC‑‑ATAAAAAAT‑‑AAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACca                                                      <  1:2740403/116‑1 (MQ=255)
                                                                    accTCGTTATCATTT‑TTTTTATTTTTTT‑ATTTTCACAAAAAAAAAAAAAACAAACCCC‑TTAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATAc                                                        <  2:118054/127‑1 (MQ=255)
                                                                      ctcgttttatATT‑TTTTTTTTTTTTT‑ATATTAACAAAAAAAAAAAAAAAAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACcac                                                     <  2:3019596/119‑1 (MQ=255)
                                                                      cgagtgtttattt‑ttttttttttttT‑AAATTTAAAAAAAAAAAAAAAAAAAAACCCTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACcaca                                                    <  1:2907312/117‑1 (MQ=255)
                                                                      actatgttCTATT‑TTTTTTTTTTTTT‑AAAATAAAAAAAAAAAAAAAAACAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACcac                                                     <  2:2209287/121‑1 (MQ=255)
                                                                       tttttaaaatat‑ttattATTTTTTT‑AAATAAAAAAAAAAAAAAAAAAAAAACCCCTTAAAAATTAAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACca                                                      <  2:546740/117‑1 (MQ=255)
                                                                       tatttttatatt‑tttttattttttT‑AAATTTAAAAATAAAAAAAAAAAAATTCCCTTAAAAATTAAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACca                                                      <  2:2506308/120‑1 (MQ=255)
                                                                       actttttttATT‑TTTTTTTTTTTTT‑ATTATAAAAAAAAAAAAAAAAAAAAAACCC‑‑ATAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACcaca                                                    <  2:3041010/120‑1 (MQ=255)
                                                                        tgtgttatATT‑TTTTTATTTGTTT‑ATATTAACAAA‑AAAAAAAAAA‑AATACCC‑‑TTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                 <  2:2623042/121‑1 (MQ=255)
                                                                        agttatatatt‑tttttattttttT‑ATATTAAAAAATAAAAAAAAAAAAATACCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACat                                                   <  1:259865/121‑1 (MQ=255)
                                                                         tttttatATT‑TTTTTTTTTTTTT‑ATATTTAAAAAAAAAAAAAAAAAAATACC‑‑ATTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatt                                                  <  2:1936362/122‑1 (MQ=255)
                                                                         ttttattttt‑tttttAATTTTTT‑ATTATAAAAAAAAAAAAAAAAAAAAAACC‑‑ATTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatt                                                  <  2:130271/120‑1 (MQ=255)
                                                                         ggatattATT‑TTTTTTTTTTTTT‑ATGATCAAAAAAAAAAAAAAAAAAAACCACAT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                 <  1:3134443/122‑1 (MQ=255)
                                                                          tGATTTTTT‑TTTTTATTTTTTT‑ATATTAAAAAAAAAAAAAAAAAAAAACCCC‑‑TTAAAAATTTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                 <  2:1091406/128‑1 (MQ=255)
                                                                           tttatatt‑tttttattttttT‑ATATTAAAAAATAAAAAAAAAAAAATACCC‑TTAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattt                                                 <  2:1112201/124‑1 (MQ=255)
                                                                           tatatatt‑tttttattttttT‑ATATTAAAAAATAAAAAAAAAAAAAAACCC‑‑TTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttt                                                <  2:1651459/124‑1 (MQ=255)
                                                                           gtaatATT‑TTTTTATTTGTTT‑AAATTAAAAAAAAAAAAAAAAACAAAACC‑‑ATTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttt                                                <  2:755283/124‑1 (MQ=255)
                                                                           atgataat‑ttattAATTGTTT‑ATATTAAAAAAAAAAAAAAAAAAAAT‑‑CCTTTTAAAAATAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttt                                                <  1:1226124/121‑1 (MQ=255)
                                                                             taaatt‑tttttattttttt‑AAATT‑AAAAAAAAAAAAAAAAAAAAACCCATTAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACatttta                                               <  2:3209572/125‑1 (MQ=255)
                                                                               tttt‑tttttattttttt‑ttattAAAAAAAAAAAAAAAAAAAAACCCCTT‑‑‑AAAAAT‑TAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCGCATTTTAttttt                                          <  1:826260/126‑1 (MQ=255)
                                                                               tATT‑TTTTTTTTTTTTT‑TTTTTTAAAAAAAAAAAAAAAAAAAAACACTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatttt                                           <  2:494837/128‑1 (MQ=255)
                                                                               atat‑ttttttttttttt‑AT‑TTAAAAAATAAAAAAAAAAAAAAACCC‑‑TAAAAAAAT‑AAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTAttttt                                          <  2:1267747/125‑1 (MQ=255)
                                                                                ttt‑ttttttttttTAT‑ATATAAAAAAATAAAAAAAAAAAAAAACC‑‑ATTAAAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatttt                                           <  1:1707966/127‑1 (MQ=255)
                                                                                att‑tttttattttttt‑ATATTAACAAAAAAAAAAAAAAAAATACCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatttt                                           <  2:389630/128‑1 (MQ=255)
                                                                                aTT‑TTTTTTTTTGTTT‑ATCATAAAAAAAAAAAAAAAAACAAAACCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACattttatttt                                           <  1:2873612/128‑1 (MQ=255)
                                                                                aTT‑TTTTTATTTTTTA‑ATATACAAAAAAAAAAAAAAAAAAAACCC‑‑‑TTAAAAATAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTAttttt                                          <  1:242051/128‑1 (MQ=255)
                                                                                  t‑ttttttttttttt‑AATTTAAAAAAAAAAAAAAAAAAAATACAC‑TTAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTAttttt                                          <  1:32803/128‑1 (MQ=255)
                                                                                  t‑tttttATTTGTTTAATTTAAAAAAAAAAAAAAAAAACAATCCCCTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTa                                         <  2:910056/128‑1 (MQ=255)
                                                                                  t‑tttttATTTGTTT‑ATTTTTACAAAAAAAAAAAAAAAAAACCCC‑TTAAAAATAAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTAttttt                                          <  1:2211355/128‑1 (MQ=255)
                                                                                    tttttATATGTTT‑ATATTAACAAAAAAAAAAAAAAAAAATCCCCTT‑‑AAAAAT‑TAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTaaa                                       <  2:856984/128‑1 (MQ=255)
                                                                                        tttattttt‑ATATTAACAAATAAAAAAAAAACAAAACCCAT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATaa                                   <  2:623100/122‑1 (MQ=255)
                                                                                        tATTTTTTT‑AATTTAAAAAAAAAAAAAAAAAAAATCCCCTT‑‑‑AAAAATTAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATaa                                   <  2:1522483/128‑1 (MQ=255)
                                                                                         tttttttT‑ATATTAAAAAATAAAAAAAAAAAAAAAACC‑‑ATAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATaa                                   <  1:2730196/127‑1 (MQ=255)
                                                                                         tttttttT‑ATATTAAAAAAAAAAAAAAAAAAAAT‑CCCATTAAAAATTAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATa                                    <  2:3073258/127‑1 (MQ=255)
                                                                                              ttttttatttaaaaaaaaaaaaaaaaaaATACCC‑‑TTAAAAAAT‑‑AAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATAtt                             <  1:346510/116‑1 (MQ=255)
                                                                                              ttt‑ATCTTCACAAATAAAAAAAAAACAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAA‑TAAAAAAAACCAATATATATTAAAATTCCAAATTATACACCATTTTATTTTTAAAATATGATAtt                             >  2:2928180/1‑128 (MQ=255)
                                                                                                ttatataaaaaaaaaaaaaaaaaaaaaaACCCTT‑‑‑AAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTg                            <  2:2838841/118‑1 (MQ=255)
                                                                                                      taaaaaaTAAAAAAAAAAAAATAACC‑‑TTAAAAAAT‑AAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACataa                      <  2:1734711/124‑1 (MQ=255)
                                                                                                       aaaaaaaaaaaaaaaaaaaATAACCTTAAAAATAAAAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCAAATTTTATTTTTAAAATAAGATATTGACat                        <  2:190269/125‑1 (MQ=255)
                                                                                                          aaaaaaaaaaaaaaaaATCCAATT‑‑‑AAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAatata                  <  2:1583999/128‑1 (MQ=255)
                                                                                                               aaaaaaaaaCAATACAC‑TTAAAAATTTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAatatatat               <  2:2458485/128‑1 (MQ=255)
                                                                                                                     aaaCAATCCCC‑‑TTAAAAATTAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAAAAAAATGTTATAAAATAACGTTTTTTACAAAATTTTTTTTTTAAAAAAAAAAATTGAAataataattttaatatat        >  1:1327813/1‑116 (MQ=255)
                                                                                                                            aaaactttAAAAAAT‑AAAAAAAAAAAAA‑ATAAAAACTAAATACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATataa  <  1:2645386/123‑1 (MQ=255)
                                                                                                                                 |                                                                                                                            
AGTTAGTGTAAATAATAGAGTTAAGGTTAATTAAAATACCATAAACTTAATAATTCTTATAATGTAGATCCTCGTGATCTATT‑TTTTTATTTGTTT‑ATCTTCACAAATAAAAAAAAAACAATCCCCTTTTAAAAAATAAAAAAAAAAAAAA‑AAAAAAACTAAAAACAAACTCTATTTCTTAAAATTCCCTATTATACCACATTTTATTTTTAAAATAAGATATTGACATAATATATATCTAATATATATAA  >  CP016816/202359‑202609

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: ‑