New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 3258154 =65 (0.630)8 (0.110) 5/34 NT 13.0% coding (1151/1338 nt) glmM phosphoglucosamine mutase
?REL606 3281934 = 61 (0.840)coding (122/492 nt) ptsN sugar‑specific enzyme IIA component of PTS

Only 100 of 123 total aligned reads displayed.

CGCGCCCTGGAAATCATCAGCGAGCTGGCGGCGAAACAACTTAGCCTGCCGCCTCAGGTGGTTTTTGAA  >  REL606/3281900‑3281968
                                  |                                  
cgcgCCCTGGAAATCATCAGCGAGCTGGCGGCGaa                                    >  1:12487483/1‑35 (MQ=255)
 ggttaacgtacgttacaccgcaggtagcggcgaaa                                   >  1:2900768‑M2/34‑35 (MQ=255)
 gcgcCCTGGAAATCATCAGCGAGCTGGCGGCGaaa                                   >  1:18643622/1‑35 (MQ=255)
 gcgcCCTGGAAATCATCAGCGAGCTGGCGGCGaaa                                   <  1:12713320/35‑1 (MQ=255)
   ttaacgtacgttacaccgcaggtagcggcgaaaca                                 >  1:17549297‑M2/32‑35 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGaacaa                                 >  1:6015062/1‑32 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGAaaca                                 <  1:19989325/35‑1 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGAaaca                                 <  1:14642710/35‑1 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGAaaca                                 <  1:20390068/35‑1 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGAaaca                                 <  1:6433971/35‑1 (MQ=255)
   gcCCTGGAAATCATCAGCGAGCTGGCGGCGAaaca                                 <  1:4556520/35‑1 (MQ=255)
   gcCCTGGAAATCAGCAGCGAGCTGGCGGCGAaaca                                 <  1:13440816/35‑1 (MQ=255)
    taacgtacgttacaccgcaggtagcggcgaaaccc                                >  1:1432541‑M2/31‑33 (MQ=255)
    taacgtacgttacaccgcaggtagcggcgaaacac                                >  1:3401707‑M2/31‑34 (MQ=255)
    cccTGGAAATCATCAGCGAGCTGGCGGCGAaacaa                                <  1:13117813/35‑1 (MQ=255)
    cccTGGAAATCATCAGCGAGCTGGCGGCGAaacaa                                <  1:10046766/35‑1 (MQ=255)
     ccTGGAAATCATCAGCTAGCTGGCGGCGAaacaac                               >  1:8993105/1‑35 (MQ=255)
     ccTGGAAATCATCAGCGAGCTGGCGGCGAaataac                               >  1:5218437/1‑35 (MQ=255)
     ccTGGAAATCATCAGCGAGCTGGCGGCGAaataac                               >  1:11166236/1‑35 (MQ=255)
     ccTGGAAATCATCAGCGAGCTGGCGGCGAaacaac                               >  1:20596629/1‑35 (MQ=255)
     ccTGGAAATCATCAGCGAGCTGGCGGCGAaacaac                               >  1:1430869/1‑35 (MQ=255)
     ccTGGAAATCATCAGCGAGCTGGCGGCGAaacaaa                               >  1:12896240/1‑34 (MQ=255)
      acgtacgttacaccgcaggtagcggcgaaccaacc                              >  1:7286277‑M2/29‑34 (MQ=255)
      acgtacgttacaccgcaggtagcggcgaAACACCt                              >  1:18147064‑M2/29‑35 (MQ=255)
       tGGAAATCATCAGCGATCTGGCGGCGAAAAAACtt                             >  1:2616826/1‑35 (MQ=37)
       cgtacgttacaccgcaggtagcggcgaAACACCtt                             >  1:7808690‑M2/28‑35 (MQ=255)
        gtacgttacaccgcaggtagcggcgaAACAActtg                            >  1:19759372‑M2/27‑34 (MQ=255)
        ggAAATCATCAGCGAGCTGGCGGCGAAACAACTTa                            <  1:9677516/35‑1 (MQ=255)
        ggAAATCATCAGCGAGCTGGCGGCGAAACAACTTa                            <  1:11375458/35‑1 (MQ=255)
        ggAAATCATCAGCGAGCGGGCGGCGAAACAACTTa                            <  1:15769981/35‑1 (MQ=255)
        cgAAATCATCAGCGAGCGGGCGGCGAAACAACTTa                            <  1:733936/34‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGGAACAACtttg                           >  1:13353552/1‑33 (MQ=25)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           >  1:4201045/1‑35 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           <  1:19244147/35‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           <  1:19890124/35‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           <  1:17047465/35‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           <  1:1078235/35‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           >  1:17511552/1‑35 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACTTAg                           <  1:18068256/35‑1 (MQ=255)
         gAAATCATCAGCGAGCTGGCGGCGAAACAACCTAg                           >  1:19530785/1‑35 (MQ=255)
          aaaTCATCAGCGAGCTGGCGGCGAAACAACTTAGc                          <  1:11397161/35‑1 (MQ=255)
          aaaTCATCAGCGAGCTGGCGGCGAAACAACTTAGc                          >  1:18185657/1‑35 (MQ=255)
          aaaTCATCAGCGAGCTGGCGGCGAAACAACTTAGc                          <  1:17234940/35‑1 (MQ=255)
          aaaTCATCAGCGAGCTGGCGGCGAAACAACTTAGc                          <  1:10233490/35‑1 (MQ=255)
          aaaTCATCAGCGAGCTGGCGGCGAAACAACTTAGc                          >  1:9180609/1‑35 (MQ=255)
           aaTCATCAGCGAGCTGGCGGCGAAACAACTTAGcc                         <  1:3701670/35‑1 (MQ=255)
           aaTCATCAGCGAGCTGGCGGCGAAACAACTTAGcc                         >  1:37885/1‑35 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACCACTTAGGCt                        >  1:19755456/1‑35 (MQ=37)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        <  1:11545815/35‑1 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        <  1:18930373/35‑1 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        <  1:2982266/35‑1 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        <  1:8666192/35‑1 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        >  1:3743361/1‑35 (MQ=255)
            atcatcAGCGAGCTGGCGGCGAAACAACTTAGCCt                        <  1:16257828/35‑1 (MQ=255)
             ttacaccgcaggtagcggcgaAACAACTTAGCATg                       >  1:4871720‑M2/22‑35 (MQ=255)
             tcatcaGCGAGCTGGCGGCGAAACAACTTAGCCTg                       <  1:8766936/35‑1 (MQ=255)
              catcaGCGAGCTGGCGGCGAAACAACTTAGCCTgc                      >  1:5947183/1‑35 (MQ=255)
              catcaGCGAGCTGGCGGCGAAACAACTTAGCCTgc                      <  1:18842237/35‑1 (MQ=255)
               atcaGCGAGCTGGCGGCGAAACAACTTAGCCTgcc                     >  1:13806884/1‑35 (MQ=255)
               atcaGCGAGCTGGCGGCGAAACAACTTAGCCTgcc                     <  1:6108126/35‑1 (MQ=255)
               atcaGCGAGCTGGCGGCGAAACAACTTAGCCTgcc                     <  1:8920623/35‑1 (MQ=255)
               atcaGCGAGCTGGCGGCGAAACAACTTAGCCTgcc                     <  1:3409307/35‑1 (MQ=255)
                tcaGCGAGCTGGCGGCGAAACAACTTAGCCTgccg                    >  1:18586952/1‑35 (MQ=255)
                tcaGCGAGCTGGCGGCGAAACAACTTAGCCTgccg                    >  1:9566417/1‑35 (MQ=255)
                 caGCGAGCTGGCGGCGAAACAACTTAGCCTgccgc                   >  1:20225800/1‑35 (MQ=255)
                 caGCGAGCTGGCGGCGAAACAACTTAGCCTgccgc                   >  1:10519904/1‑35 (MQ=255)
                  aGCGAGCTGGCGGCGAAACAACTTAGCCTgccgcc                  >  1:20416135/1‑35 (MQ=255)
                   gCGAGCTGGCGGCGAAACAACTTAGCCTGCCGCCt                 <  1:10232587/35‑1 (MQ=255)
                   gCGAGCTGGCGGCGAAACAACTTAGCCTGCAGCCt                 <  1:15275779/35‑1 (MQ=255)
                   gCGAGCGGGCGGCGAAACAACTTAGCCTGCCGCCt                 <  1:9114764/35‑1 (MQ=255)
                    cGAGCTGGCGGCGAAACAACTTAGCCTGCCGCCTc                >  1:18160970/1‑35 (MQ=255)
                     gAGCTGGCGGCGAAAAAACTTAGCCTGCCGCCTCa               >  1:5849321/1‑35 (MQ=255)
                        cTGGCGGCGAAACAACTTAGCCTGCCGCCTCCggt            >  1:19100777/1‑35 (MQ=255)
                        cTGGCGGCGAAACAACTTAGCCTGCCGCCTCAggt            >  1:16505744/1‑35 (MQ=255)
                        cTGGCGGCGAAACAACTTAGCCTGCCGCCTCAggg            >  1:12554157/1‑34 (MQ=255)
                          gggggcaAAACAACTTAGCCTGCCGCCTCAggtgg          <  1:5648427/32‑1 (MQ=38)
                            cggcgaAACAACTTAGCCTGCCGCCTcaggtgggt        >  1:15864828‑M2/7‑33 (MQ=255)
                            cggcgaAACAACTTAGCCTGCCGCCTcaggtgggt        >  1:5451146‑M2/7‑33 (MQ=255)
                            cggcgaAACAACTTAGCCTGCCGCCTcaggtgggt        >  1:3426204‑M2/7‑33 (MQ=255)
                            cggcgaAACAACTTAGCCTGCCGCCTCAGGTGGtt        >  1:15974956‑M2/7‑35 (MQ=255)
                             ggcgaAACAACTTAGCCTGCCGCCTCAGGTGGgtt       >  1:598015‑M2/6‑35 (MQ=255)
                              gcgaAACAACTTAGCCTGCCGCCTCAGGTGGtttt      >  1:255007‑M2/5‑35 (MQ=255)
                              gcgAAACAACTTAGCCTGCCGCCTCAGGGGGgttt      >  1:1504774/1‑35 (MQ=38)
                              gcaaAACAACTTAGCCTGCCGCCTCAGGTGGtttt      <  1:12721385‑M2/31‑1 (MQ=255)
                              gcaaAACAACTTAGCCTGCCGCCTCAGGTGGtttt      <  1:1771979‑M2/31‑1 (MQ=255)
                               cgaAACAACTTAGCCTGCCGCCTCAGGTGGttttt     >  1:291292‑M2/4‑35 (MQ=255)
                               cgaAACAACTTAGCCTGCCGCCTCAGGTGGttttt     >  1:12531262‑M2/4‑35 (MQ=255)
                               cgaAACAACTTAGCCTGCCGCCTCAGGTGGttttt     >  1:19809534‑M2/4‑35 (MQ=255)
                               cgaAACAACTTAGCCTGCCGCCTCAGGTGGgtttt     >  1:15472409‑M2/4‑35 (MQ=255)
                               cgaAACAACTTAGCCTGCCGCCTCAGGTGGgtttt     >  1:1365283‑M2/4‑35 (MQ=255)
                               caaaaCACCTTACCCTGCCGCCTCAGGTGGttttt     <  1:16485772/33‑1 (MQ=37)
                                gaAACAACTTAGCCTGCCGCCTCAGGTTGTTTTTg    >  1:15200463‑M2/3‑35 (MQ=255)
                                gaAACAACTTAGCCTGCCGCCTCAGGTGGTTTTTg    >  1:1863262‑M2/3‑35 (MQ=255)
                                gaAACAACTTAGCCTGCCGCCTCAGGTGGTTTTTg    >  1:1877758‑M2/3‑35 (MQ=255)
                                gaAACAACTTAGCCTGCCGCCTCAGGTGGGTTTTg    >  1:16696074‑M2/3‑35 (MQ=255)
                                 aAACAACTTAGCCTGCCGCCTCAGGTGGTTTTTGa   >  1:7627906‑M2/2‑35 (MQ=255)
                                 aAACAACTTAGCCTGCCGCCTCAGGTGGGTTTTGa   >  1:4134817‑M2/2‑35 (MQ=255)
                                  aacaccTTACCCTGCCGCCTCAGGTGGTTTTTGaa  <  1:15708454/35‑1 (MQ=37)
                                  aacaacTTAGCCTGCCGCCTCAGGTGGTTTTTGaa  >  1:6889510/1‑35 (MQ=255)
                                  aacaacTTAGCCTGCCGCCTCAGGTGGTTTTTGaa  <  1:7798306/35‑1 (MQ=255)
                                  |                                  
CGCGCCCTGGAAATCATCAGCGAGCTGGCGGCGAAACAACTTAGCCTGCCGCCTCAGGTGGTTTTTGAA  >  REL606/3281900‑3281968

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ 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.