New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 57446427 (0.170)4 (0.030) 4/250 NT 13.3% intergenic (+125/+65) quuD/nmpC DLP12 prophage; putative antitermination protein/DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage
?NC_000913 = 574470 27 (0.180)intergenic (+131/+59) quuD/nmpC DLP12 prophage; putative antitermination protein/DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage

GCTGCTCTGATGGTTATATCGGGAAAAGGTTACAGAAGGCTGAGGGCATAATTGAAGGGATGTTAATGGCATTAGATATCCGGTTAGAGATGGATATCGTTGTTAATAACTCTAATTAATATGCCAATTGTTTACTAAAAATTATTAAAAATGGGGCGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCCCCAGTTT  >  NC_000913/574221‑574736
                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                                                
gctggtCTGATGGTTATAGCGTGAAAATGGTACAGAAGGCTTAGGGCATAAGTGAAGGGATGTTAATGACATTAGATATCCGGTTAGAGATGGATATCGTTGTTAATAACTCTAATTAATATGCAAATTGTTTACTAAAAATTATTAAAAATGGGGCGTTGATACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                                                                                                                                                                                                                                                   <  1:19158/275‑1 (MQ=255)
                                                                                                                                                            cGTTGAGACTCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGCTGTGCTTCTAAAGGAAGTGGCTTGAggg                                                                                                                                                                                                                                                                            >  8:990135/1‑94 (MQ=255)
                                                                                                                                                            cGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAggg                                                                                                                                                                                                                                                                            <  7:990135/94‑1 (MQ=255)
                                                                                                                                                                            aaaaTAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATg                                                                                                                                                                                                                                                               >  8:637532/1‑91 (MQ=255)
                                                                                                                                                                            aaaaTAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATg                                                                                                                                                                                                                                                               <  7:637532/91‑1 (MQ=255)
                                                                                                                                                                                        aaTATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTg                                                                                                                                                                                                                                                                                <  6:1087203/62‑1 (MQ=255)
                                                                                                                                                                                        aaTATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTg                                                                                                                                                                                                                                                                                >  5:1087203/1‑62 (MQ=255)
                                                                                                                                                                                              taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                                                                                                                                                                                                                                                   >  8:1013517/1‑85 (MQ=255)
                                                                                                                                                                                              taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                                                                                                                                                                                                                                                   <  7:1013517/85‑1 (MQ=255)
                                                                                                                                                                                                   gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAgg                                                                                                                                                                                                                                                                             <  8:840040/54‑1 (MQ=255)
                                                                                                                                                                                                   gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAgg                                                                                                                                                                                                                                                                             >  7:840040/1‑54 (MQ=255)
                                                                                                                                                                                                   gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                                                                                                                                                                                                                                                           >  5:184275/1‑72 (MQ=255)
                                                                                                                                                                                                   gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                                                                                                                                                                                                                                                           <  6:184275/72‑1 (MQ=255)
                                                                                                                                                                                                      ggTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGc                                               >  2:24962/1‑273 (MQ=255)
                                                                                                                                                                                                                 ttAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAgg                                                                                                                                                                                                                                                                             >  2:184250/1‑40 (MQ=255)
                                                                                                                                                                                                                 ttAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTTCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCTGTAAATGCCTTGAATCAGCCTATTTAGACCGt                                  >  2:142890/1‑275 (MQ=255)
                                                                                                                                                                                                                 ttAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCCGCCTATTTAGACCGt                                  >  4:76587/1‑275 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagcca                                                                                                                                                                                                                                                                       >  6:507928‑M1/1‑34 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagcca                                                                                                                                                                                                                                                                       <  5:507928‑M1/45‑12 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa                                                                                                                                                                                                                                     <  7:369279/79‑1 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa                                                                                                                                                                                                                                     >  8:369279/1‑79 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGt                                                                                                                                                                               >  1:88593/1‑133 (MQ=255)
                                                                                                                                                                                                                  tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGtt                                 >  4:33653/1‑275 (MQ=255)
                                                                                                                                                                                                                    gAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagccacttcctt                                                                                                                                                                                                                                                                >  5:783995‑M1/1‑32 (MQ=255)
                                                                                                                                                                                                                    gAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagccacttcctt                                                                                                                                                                                                                                                                <  6:783995‑M1/50‑19 (MQ=255)
                                                                                                                                                                                                                     aaGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGagc                                                                                                                                                                                                                                                                         >  4:184249‑M2/1‑37 (MQ=255)
                                                                                                                                                                                                                      aGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGtcatc                                                                                                                                                                           <  3:88593/133‑1 (MQ=255)
                                                                                                                                                                                                                          aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                                                                                                                                                                                                                                                         >  7:631169/1‑51 (MQ=255)
                                                                                                                                                                                                                          aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                                                                                                                                                                                                                                                         <  8:631169/51‑1 (MQ=255)
                                                                                                                                                                                                                           ggTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTTGcc                         >  1:73225/1‑274 (MQ=255)
                                                                                                                                                                                                                                tgCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTaca                                                                                                                                                                 >  4:570019/1‑133 (MQ=255)
                                                                                                                                                                                                                                tgCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCt                                                                                                                >  4:444636/1‑182 (MQ=255)
                                                                                                                                                                                                                                tgCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTaa                   >  2:453523/1‑275 (MQ=255)
                                                                                                                                                                                                                                  cTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGNTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCTTTTCTTCATGTTTGAGCCGATTTTNGCTCCCGTAAATGCCTTGAATAAGTNTCTGTAGACCTTTTCTTTTCCATTTACgg                 >  3:98493/1‑275 (MQ=37)
                                                                                                                                                                                                                                    tCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGa                                                                                                                                                             <  2:570020/133‑1 (MQ=255)
                                                                                                                                                                                                                                    tCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACt                                                                                                            <  2:444637/182‑1 (MQ=255)
                                                                                                                                                                                                                                        aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc                                                                                                                                                                                                                                            >  5:783995‑M2/1‑18 (MQ=255)
                                                                                                                                                                                                                                        aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc                                                                                                                                                                                                                                            <  6:783995‑M2/50‑33 (MQ=255)
                                                                                                                                                                                                                                            aaGTGGCTTGAGGGAGCCACTTAAAAGTTGGGGAGGCAAAGCCTCCCGCAAAATATCTTTTTCGTAATCAGAGTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATcccc       <  4:453522/275‑1 (MQ=255)
                                                                                                                                                                                                                                               tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta                                                                                                                                                                                                                                          >  6:507928‑M2/1‑11 (MQ=255)
                                                                                                                                                                                                                                               tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta                                                                                                                                                                                                                                          <  5:507928‑M2/45‑35 (MQ=255)
                                                                                                                                                                                                                                               tGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTa                                                                                                                                                                   >  4:545042/1‑116 (MQ=255)
                                                                                                                                                                                                                                                 gCTccctcaagccacttcctttagaagcacaaccttgctt                                                                                                                                                                                                                                             >  4:184249‑M1/1‑3 (MQ=255)
                                                                                                                                                                                                                                                  cTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCCCCAGttt  >  1:75215/1‑274 (MQ=255)
                                                                                                                                                                                                                                                  cTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCCCCAGttt  >  2:546116/1‑274 (MQ=255)
                                                                                                                                                                                                                                                   ttGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACAcc                                                                                                                                                               <  2:545043/116‑1 (MQ=255)
                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                                                
GCTGCTCTGATGGTTATATCGGGAAAAGGTTACAGAAGGCTGAGGGCATAATTGAAGGGATGTTAATGGCATTAGATATCCGGTTAGAGATGGATATCGTTGTTAATAACTCTAATTAATATGCCAATTGTTTACTAAAAATTATTAAAAATGGGGCGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACATATCTTTTTCGTAATCAGATTAGAACTGGTAAACCAGACCTACAGCAACGATGTCATCAGTGCTTACACCGAGTGCTTTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCAGCCTATTTAGACCGTTTCTTCGCCATTTAAGGCGTTATCCCCAGTTT  >  NC_000913/574221‑574736

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.