New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 326209 =90 (0.880)5 (0.050) 3/46 NT 7.2% coding (854/1887 nt) prpE predicted propionyl‑CoA synthetase with ATPase domain
?REL606 3368427 = 42 (0.430)coding (508/990 nt) rpoA DNA‑directed RNA polymerase subunit alpha

TCCACAGGGCTGTAGCATGCGTCGACCAGCAGACGGCCGATTGGGCGCTCATCTTCTTCCGAATGAATT  >  REL606/3368393‑3368461
                                  |                                  
tCCACAGGGCTGTAGCATGCGTCGACCAGCAGACg                                    >  1:2820018/1‑35 (MQ=255)
tCCACAGGGCTGTAGCATGCGTCGACCAGCAGACg                                    <  1:8899732/35‑1 (MQ=255)
tCCACAGGGCTGTAGCATGCGTCGACCAGCAGACg                                    <  1:14805403/35‑1 (MQ=255)
tCCACAGGGCTGTAGCATGCGTCGACCAGCAGACg                                    <  1:9515550/35‑1 (MQ=255)
 ncacaGGGCTGTAGCATGCGTCGACCAGCAGACgg                                   >  1:9082586/2‑35 (MQ=255)
 ccACAGGGCTGTAGCATGCGTCGACCAGCAGACgg                                   >  1:18433654/1‑35 (MQ=255)
 ccACAGGGCTGTAGCATGCGTCGACCAGCAGACgg                                   >  1:13714445/1‑35 (MQ=255)
  cacaGGGCTGTAGCATGCGTCGACCAGCAGACGGc                                  >  1:9734227/1‑35 (MQ=255)
  cacaGGGCTGTAGCATGCGTCGACCAGCAGACGGc                                  >  1:12027703/1‑35 (MQ=255)
   acaGGGCTGTAGCATGCGTCGACCAGCAGACGGcc                                 >  1:19261989/1‑35 (MQ=255)
    caGGGCTGTAGCATGCGTCGACCAGCAGACGGCCg                                >  1:12631348/1‑35 (MQ=255)
     aGGGCTGTAGCATGCGTCGACCAGCAGACGGCCGa                               >  1:6528277/1‑35 (MQ=255)
      gggCTGTAGCATGCGTCTACCAGCAGACGGCCGAt                              >  1:6477007/1‑35 (MQ=255)
      gggCTGTAGCATGCGTCGACCAGCAGACGGCCGAt                              >  1:4236544/1‑35 (MQ=255)
        gCTGTAGCATGCGTCGACCAGCAGACGGGCGAtta                            >  1:7493167/1‑34 (MQ=255)
         cTGTAGCATGCGTCGACCAGCAGACGGCCGCTTgg                           >  1:16134622/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:18441708/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:14885304/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:14978812/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:3368434/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:18995434/1‑35 (MQ=255)
          tGTAGCATGCGTCGACCAGCAGACGGCCGATTggg                          >  1:17030455/1‑35 (MQ=255)
           gTAGCATGCGTCGACCAGCAGACGGCCGATTgggg                         >  1:11552011/1‑34 (MQ=255)
           gTAGCATGCGTCGACCAGCAGACGGCCGATTGGgc                         >  1:20257397/1‑35 (MQ=255)
           gTAGCATGCGTCGACCAGCAGACGGCCGATTGGgc                         >  1:4433929/1‑35 (MQ=255)
           gTAGCATGCGTCGACCAGCAGACGGCCGATTGGgc                         >  1:1389418/1‑35 (MQ=255)
            tAGCATGCGTCGACCAGCAGACGGCCGATTGGgcg                        >  1:6790647/1‑35 (MQ=255)
            tAGCATGCGTCGACCAGCAGACGGCCGATTGGgcg                        >  1:3596564/1‑35 (MQ=255)
             aGCATGCGTCGACCAGCAGACGGCCGATTGGgcgc                       >  1:19556816/1‑35 (MQ=255)
              gCATGCGTCGACCAGCAGACGGCCGATTGGGCGCt                      >  1:2604109/1‑35 (MQ=255)
                aTGCGTCGACCAGCAGACGGCCGATTGGGCGCTCa                    >  1:17844015/1‑35 (MQ=255)
                aTGCGTCGACCAGCAGACGGCCGATTGGGCGCTCa                    >  1:13683277/1‑35 (MQ=255)
                 ttcGTCGACCAGCAGACGGCCGCTTGGGCGCTCAt                   >  1:19391987/3‑35 (MQ=38)
                 tGCGTCGACCAGCAGACGGCCGATTGGGCGCTCAt                   >  1:18848112/1‑35 (MQ=255)
                 tGCGTCGACCAGCAGACGGCCGACTGGGTCCTCAt                   >  1:8733132/1‑35 (MQ=25)
                  gCGTCGACCAGCAGACGGCCGATTGGGCGCTCAtc                  >  1:20576744/1‑35 (MQ=255)
                  gCGTCGACCAGCAGACGGCCGATTGGGCGCTCAtc                  >  1:6073663/1‑35 (MQ=255)
                  gCGTCGACCAGCAGACGGCCGATTGGGCGCTCAtc                  >  1:9871400/1‑35 (MQ=255)
                   cGTCGACCAGCAGACGGCCGATTGGGCGCTCAtct                 >  1:4459616/1‑35 (MQ=255)
                    gTCGACCAGCAGACGGCCGATTGGGCGCTCAtctt                >  1:16941143/1‑35 (MQ=255)
                    gTCGACCAGCAGACGGCCGATTGGGCGCTCAtctt                >  1:16099865/1‑35 (MQ=255)
                     tCGACCAGCAGACGGCCGATTGGGCGCTCAtcttc               >  1:9664658/1‑35 (MQ=255)
                      cGACCAGCAGACTGCCGATTGGGCGCTCAtcttct              >  1:5223056/1‑35 (MQ=255)
                       gccccccacccGGCCGATTGGGCGCTCATcttctt             <  1:330604‑M2/24‑1 (MQ=255)
                       gcccagcacccGGCCGATTGGGCGCTCATcttctt             <  1:20434107‑M2/24‑1 (MQ=255)
                       gACCAGCAGACGGCCGATTGGGCGCTCATcttctt             >  1:7187543/1‑35 (MQ=255)
                       ccccaccacccGGCCGATTGGGCGCTCATcttctt             <  1:5816918‑M2/24‑1 (MQ=255)
                        cccaccacccGGCCGATTGGGCGCTCATCttcttc            <  1:8429175‑M2/25‑1 (MQ=255)
                        aCCAGCAGACTGCCGATTGGGCGCTCATCttcttc            >  1:18332493/1‑35 (MQ=255)
                        aCCAGCAGACGGCCGATTGGGCGCTCATCttcttc            >  1:17863283/1‑35 (MQ=255)
                        aCCAGCAGACGGCCGATTGGGCGCTCATCttcttc            >  1:17149612/1‑35 (MQ=255)
                        aCCAGCAGACGGCCGATTGGGCGCTCATCttcttc            >  1:16744916/1‑35 (MQ=255)
                          cagcagACGGCCGATTGGGCGCTCATCTTCTTCCg          >  1:17821168/1‑35 (MQ=255)
                          cagcagACGGCCGATTGGGCGCTCATCTTCTTCCg          >  1:17378749/1‑35 (MQ=255)
                          cagcagACGGCCGATTGGGCGCTCATCTTCTTCCg          >  1:11501035/1‑35 (MQ=255)
                           cccacccGGCCGATTGGGCGCTCATCTTCTTCCga         <  1:15902812‑M2/28‑1 (MQ=255)
                           agcagACGGCCGATTGGGCGCTCATCTTCTTCCga         >  1:15181799/1‑35 (MQ=255)
                           agcagACGGCCGATTGGGCGCTCATCTTCTTCCga         >  1:9642222/1‑35 (MQ=255)
                           accacccGGCCGATTGGGCGCTCATCTTCTTCCga         <  1:18063869‑M2/28‑1 (MQ=255)
                            gcagACGGCCGATTGGGCGCTCATCTTCTTCCgaa        >  1:10332109/1‑35 (MQ=255)
                            gcagACGGCCGATTGGGCGCTCATCTTCTTCCgaa        >  1:2161154/1‑35 (MQ=255)
                            gcagACGGCCGATTGGGCGCTCATCTTCTTCCgaa        >  1:13975566/1‑35 (MQ=255)
                             cagACGGCCTATTGGGCGCTCATCTTCTTCCgaat       >  1:10975188/1‑35 (MQ=255)
                             cagACGGCCGATTGGGCGCTCATCTTCTTCCgaat       >  1:20612349/1‑35 (MQ=255)
                             cagACGGCCGATTGGGCGCTCATCTTCTTCCgaat       >  1:752160/1‑35 (MQ=255)
                             cagACGGCCGATTGGGCGCTCATCTTCTTCCgaat       >  1:9203951/1‑35 (MQ=255)
                             cacccGGCCGATTGGGCGCTCATCTTCTTCCgaat       <  1:12059086‑M2/30‑1 (MQ=255)
                              agACGGCCGATTGGGCGCTCATCTTCTTCCgaatg      >  1:18717748/1‑35 (MQ=255)
                              agACGGCCGATTGGGCGCTCATCTTCTTCCgaatg      >  1:7857018/1‑35 (MQ=255)
                              acccGGCCGATTGGGCGCTCATCTTCTTCCgaatg      <  1:1381351‑M2/31‑1 (MQ=255)
                               gACGGCCGATTGGGCGCTCATCTTCTTCCgaatga     >  1:385376/1‑35 (MQ=255)
                               cccGGCCGATTGGGCGCTCATCTTCTTCCgaatga     <  1:18780528‑M2/32‑1 (MQ=255)
                                aCGGCCGATTGGGCGCTCATCTTCTTCCgaatgaa    >  1:18312206/1‑35 (MQ=255)
                                 cGGCCGATTGGGCGCTCATCTTCTTCCgaatgaat   <  1:16775112‑M2/34‑1 (MQ=255)
                                 cGGCCGATTGGGCGCTCATCTTCTTCCgaatgaat   <  1:19133240‑M2/34‑1 (MQ=255)
                                  ggCCGATTGGGCGCTCATCTTCTTCCGAATGAAtt  >  1:15122356/1‑35 (MQ=255)
                                  ggCCGATTGGGCGCTCATCTTCTTCCGAATGAAtt  <  1:6753184/35‑1 (MQ=255)
                                  ggCCGATTGGGCGCTCATCTTCTTCAGAATGAAtt  <  1:1660029/35‑1 (MQ=255)
                                  |                                  
TCCACAGGGCTGTAGCATGCGTCGACCAGCAGACGGCCGATTGGGCGCTCATCTTCTTCCGAATGAATT  >  REL606/3368393‑3368461

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.