New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 = 80092827 (0.910)3 (0.110) 3/246 NT 8.0% intergenic (+62/‑289) hisC1/USA300HOU_0748 histidinol‑phosphate transaminase/hypothetical protein
?CP000730 801948 = 43 (1.530)intergenic (+189/+435) USA300HOU_0748/dgkA1 hypothetical protein/possible diacylglycerol kinase

AAGTAATTGTGACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCA  >  CP000730/801810‑802086
                                                                                                                                          |                                                                                                                                          
aaGTAATTGTGACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATa                                                                                                                                          >  2:286556/1‑141 (MQ=255)
   tAATTGTGACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAg                                                                                                                                       >  2:111747/1‑141 (MQ=255)
        gtgACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATa                                                                                                                                  <  1:159725/141‑1 (MQ=255)
         tgattgatATGAACTTTTATGTCTTAGCCACTACAACACTATATTGTCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATAc                                                                                                                                 <  1:164157/141‑1 (MQ=255)
          gACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGacaatct                                                                                                                                >  2:284628/1‑135 (MQ=255)
                             aaaatgataaaatgttagaagttttatcaaactttaaatacgaatagtaagtggggagtgggacagaaatgatactttcgcaaaatttatttcgtcgtcccaccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTa                                                                                                             >  2:340724‑M2/110‑141 (MQ=255)
                              tCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAGATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTAt                                                                                                            <  1:205875/141‑1 (MQ=255)
                              tCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTAt                                                                                                            <  1:205880/141‑1 (MQ=255)
                                     cacTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTAt                                                                                                     <  1:273425/141‑1 (MQ=255)
                                     cacTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTAt                                                                                                     >  2:115893/1‑141 (MQ=255)
                                        tACAACACTATATTGCCAGTAGTTGACTGCGGTGCCCCAACATAGAGAAATTCGAACGCCAATTTCTACAGACAATTCAACTTGGTGTCTGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCa                                                                                                  <  2:234627/141‑1 (MQ=18)
                                                 atatTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTaa                                                                                         >  1:123709/1‑141 (MQ=255)
                                                 atatTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTaa                                                                                         >  2:217675/1‑141 (MQ=255)
                                                      ggCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCAt                                                                                    >  1:300011/1‑141 (MQ=255)
                                                         agtagtTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATGCTTTTTCTTTAGAAATTAGGATTTCTTATGCATGCGTGTAACTCATGCa                                                                                 >  1:327256/1‑141 (MQ=255)
                                                         agtagtTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCa                                                                                 >  1:283911/1‑141 (MQ=255)
                                                         agtagtTGACTGCGAGGCCCCAACATAGACAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCa                                                                                 >  1:191588/1‑141 (MQ=255)
                                                             gtTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCa                                                                             >  2:237690/1‑141 (MQ=255)
                                                               tGACTGGGGGGCTCCAACATAGAGGAATTTGAACGCTGTTGGCTACAGACCATGCGGGATGGGGGTGCCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTATTATGCATGAGTGTAACTCATGCATTCata                                                                           >  2:263350/1‑141 (MQ=17)
                                                               tGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATCCTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACGCATGCATTCata                                                                           >  2:279727/1‑141 (MQ=255)
                                                                         gCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTa                                                                 >  1:208292/1‑141 (MQ=255)
                                                                              agtggggagtgggacagaaatgatactgtcgcaaaatttatgtcgtcgtcccaccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACAt                                                            <  1:17605‑M2/81‑1 (MQ=255)
                                                                              aaCATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACAt                                                            >  1:39387/1‑141 (MQ=255)
                                                                              aaCATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACAt                                                            >  1:91432/1‑141 (MQ=255)
                                                                              aaCATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACAt                                                            >  2:332021/1‑141 (MQ=255)
                                                                               aCATAGAGAAATTGGAACGCCAATTTGTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACAtt                                                           <  1:217675/141‑1 (MQ=255)
                                                                                 aTAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATCCATTCATATTTTTAAGTACACATAAg                                                         >  1:305040/1‑141 (MQ=255)
                                                                                   agagAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACGTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCt                                                       <  2:101540/141‑1 (MQ=255)
                                                                                    gagaAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCCTGCATTCATTTTTTTAAGTACACATTAGCtg                                                      >  2:221318/1‑141 (MQ=255)
                                                                                    gagaAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCtt                                                      >  2:153432/1‑140 (MQ=255)
                                                                                     agaAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATAATTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTACCtgt                                                     >  1:320555/1‑141 (MQ=255)
                                                                                       aaaTTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTTTTTTTTTTTTAGTATTTCTTATGCATTAGTGTAACTCATGCATTCATTTTTTTAAGTACATTTTAGCtttca                                                   >  2:75810/1‑137 (MQ=18)
                                                                                       aaaTTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGa                                                   >  2:44277/1‑141 (MQ=255)
                                                                                               aCGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGAt                                           >  1:153426/1‑141 (MQ=255)
                                                                                                   cAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTCTGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACCCATTGACTGTGACTAATGCTaaaa                                       >  1:286460/1‑140 (MQ=18)
                                                                                                     agtccTACAGACAATGCAAGGTGGGGTGGGCCGCAACAGAAAGAAATGCTTTTTCTTTAAAAATTAGTATTTAGTATGCAGGAGTGTAACTCATGCATTCATATTTGTAAGTACACATTAGCTGTGACTAATGATAAAGaa                                     <  2:142684/137‑1 (MQ=18)
                                                                                                         cTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTTGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGc                                 <  2:193693/141‑1 (MQ=255)
                                                                                                         cTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGc                                 <  2:275110/141‑1 (MQ=255)
                                                                                                          tACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCGTTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGca                                >  2:217457/1‑140 (MQ=255)
                                                                                                           aCAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTa                               >  1:205947/1‑141 (MQ=255)
                                                                                                               aaatttatttcgtcgtccccccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATa                           <  1:326870‑M2/114‑1 (MQ=255)
                                                                                                                  aTGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATaata                        >  2:127010/1‑140 (MQ=255)
                                                                                                                  aTGCAAGTTGGGGTGGGCCCCAACATAAAGAAATAATTTTACGCTATGAAATAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAAGCGCGACATaatc                        >  1:337559/1‑141 (MQ=18)
                                                                                                                      aaGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATATCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATaatccatc                    >  1:240131/1‑141 (MQ=255)
                                                                                                                        gTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATAAATCAt                  >  2:259098/1‑141 (MQ=255)
                                                                                                                          tGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTa                <  1:111747/141‑1 (MQ=255)
                                                                                                                           ggggTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAg               <  2:205947/141‑1 (MQ=255)
                                                                                                                                        acATAAAGTAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTATACATTAGCCGTGACTAATGATAAAGAATCGCTACATAATAAATCATTACTCGTTCTTTAtcc  >  2:12793‑M2/3‑140 (MQ=255)
                                                                                                                                          |                                                                                                                                          
AAGTAATTGTGACTGAGATGAACTTTTATGTCTTAGACACTACAACACTATATTGGCAGTAGTTGACTGCGGGGCCCCAACATAGAGAAATTGGAACGCCAATTTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCA  >  CP000730/801810‑802086

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.