New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 413197 =80 (0.780)16 (0.210) 3/36 NT 19.4% coding (93/492 nt) yajQ nucleotide‑binding protein
?REL606 3219746 = 73 (0.950)coding (344/477 nt) agaB N‑acetylgalactosamine‑specific enzyme IIB component of PTS

Only 100 of 179 total aligned reads displayed.

GATGTCAACGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCGAT  >  REL606/3219712‑3219780
                                  |                                  
gttcagctcaaatgaggcttcaacgttacggaagg                                    >  1:8656915‑M2/35‑35 (MQ=255)
gttcagctcaaatgaggcttcaacgttacggaagg                                    >  1:5347550‑M2/35‑35 (MQ=255)
gttcagctcaaatgaggcttcaacgttacggaagg                                    >  1:5766279‑M2/35‑35 (MQ=255)
gttcagctcaaatgaggcttcaacgttacggaagg                                    >  1:17425403‑M2/35‑35 (MQ=255)
 ttcagctcaaatgaggcttcaacgttacggaaggg                                   >  1:7434785‑M2/34‑35 (MQ=255)
 ttcagctcaaatgaggcttcaacgttacggaaggc                                   >  1:9198114‑M2/34‑34 (MQ=255)
 aTGTCAACGTCGGCAATATGCATTTCTCGGAAggg                                   <  1:16298711/35‑1 (MQ=255)
  tGTCAACGTCGGCAATATGCATTTCTCGGAAGGGa                                  >  1:401759/1‑35 (MQ=255)
  tGTCAACGTCGGCAATATGCATTTCTCGGAAGGGa                                  <  1:4165963/35‑1 (MQ=255)
   cagctcaaatgaggcttcaacgttacggaaggcga                                 >  1:15843176‑M2/32‑32 (MQ=255)
   cagctcaaatgaggcttcaacgttacggaagGGaa                                 >  1:2203118‑M2/32‑35 (MQ=255)
    tCAACGTCGGCAATATGCATTTCTCGGAATGGaaa                                >  1:11395433/1‑35 (MQ=255)
    tCAACGTCGGCAATATGCATTTCTCGGAAGGGaaa                                <  1:10367399/35‑1 (MQ=255)
    agctcaaatgaggcttcaacgttacggaagGCaaa                                >  1:11051676‑M2/31‑35 (MQ=255)
     gctcaaatgaggcttcaacgttacggaagGGgaaa                               >  1:14642558‑M2/30‑35 (MQ=255)
     gctcaaatgaggcttcaacgttacggaagGGaaaa                               >  1:15468086‑M2/30‑35 (MQ=255)
     gctcaaatgaggcttcaacgttacggaagGGaaaa                               >  1:10720094‑M2/30‑35 (MQ=255)
      ctcaaatgaggcttcaacgttacggaagGgaaaac                              >  1:5165975‑M2/29‑34 (MQ=255)
      ctcaaatgaggcttcaacgttacggaagGGcaaaa                              >  1:15205848‑M2/29‑35 (MQ=255)
      ctcaaatgaggcttcaacgttacggaagGGcaaaa                              >  1:10848508‑M2/29‑35 (MQ=255)
      aaCGTCGGCAATATGCATTTCTCGGAAGGGaaaaa                              <  1:8045039/35‑1 (MQ=255)
       tcaaatgaggcttcaacgttacggaagGgaaaaac                             >  1:12516152‑M2/28‑34 (MQ=255)
       tcaaatgaggcttcaacgttacggaagGgaaaaaa                             >  1:3294799‑M2/28‑34 (MQ=255)
       tcaaatgaggcttcaacgttacggaagGGAAAAAg                             >  1:1150538‑M2/28‑35 (MQ=255)
       aCGTCGGCAATATGCATTTCTCGGAAGGGAAAAAg                             >  1:18060163/1‑35 (MQ=255)
       aCGTCGGCAATATGCATTTCTCGGAAGGGAAAAAg                             <  1:9812998/35‑1 (MQ=255)
       aCGTCGGCAATATGCATTCCTCGGAAGGGAAAAAg                             >  1:19854878/1‑35 (MQ=255)
        caaatgaggcttcaacgttacggaagggaaaacag                            >  1:2117581‑M2/27‑32 (MQ=255)
        cGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGc                            >  1:13133352/1‑35 (MQ=255)
        cGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGc                            >  1:6989095/1‑35 (MQ=255)
        cGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGc                            >  1:18943867/1‑35 (MQ=255)
        cGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGc                            <  1:8529010/35‑1 (MQ=255)
         gTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCa                           >  1:13359076/1‑35 (MQ=255)
         gTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCa                           >  1:4133696/1‑35 (MQ=255)
         gTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCa                           >  1:20261845/1‑35 (MQ=255)
         gTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCa                           >  1:19262509/1‑35 (MQ=255)
         aaatgaggcttcaacgttacggaagggaaaaaaag                           >  1:3005434‑M2/26‑32 (MQ=255)
          tCGGCAATATGCATTTCTCGGAAGGGAAAAAGCaa                          <  1:9636698/35‑1 (MQ=255)
          tCGGCAATATGCATTTCTCGGAAGGGAAAAAGCaa                          >  1:3171016/1‑35 (MQ=255)
           cGGCAATATGCATTTCTCGGAAGGGAAAAAGCaaa                         <  1:16582508/35‑1 (MQ=255)
           cGGCAATATGCATTTCTCGGAAGGGAAAAAGCaaa                         >  1:6136473/1‑35 (MQ=255)
           cGGCAATATGCATTTCTCGGAAGGGAAAAAGCaaa                         <  1:17259811/35‑1 (MQ=255)
           cGGCAATATGCATTTCTCGGAAGGGAAAAAGCaaa                         <  1:11569878/35‑1 (MQ=255)
           cGGCAATAAGCATTTCTCGGAAGGGAAAAAGCaaa                         <  1:5665555/35‑1 (MQ=255)
            ggCAATATGCATTTCTCGGAAGGGAAAAAGCAAAt                        <  1:19833155/35‑1 (MQ=255)
            ggCAATATGCATTTCTCGGAAGGGAAAAAGCAAAt                        >  1:20161573/1‑35 (MQ=255)
            ggCAATATGCATTTCTCGGAAGGGAAAAAGCAAAt                        <  1:174288/35‑1 (MQ=255)
             gCAATATGCATTTCTCGGAAGGGAAAAAGCAAATc                       <  1:890074/35‑1 (MQ=255)
              cAATATGCATTTCTCGGAAGGGAAAAAGCAAATca                      <  1:17023659/35‑1 (MQ=255)
              cAATATGCATTTCTCGGAAGGGAAAAAGCAAATca                      >  1:6060712/1‑35 (MQ=255)
              cAATATGCATTTCTCGGAAGGGAAAAAGCAAATca                      >  1:12222201/1‑35 (MQ=255)
               aaTATGCATTTCTCGGAAGGGAAAAAGCAAATcag                     <  1:7586922/35‑1 (MQ=255)
               aaTATGCATTTCTCGGAAGGGAAAAAGCAAATcag                     <  1:9292497/35‑1 (MQ=255)
               aaTATGCATTTCTCGGAAGGGAAAAAGCAAATcag                     <  1:17610545/35‑1 (MQ=255)
                atatGCATTTCTCGGAAGGGAAAAAGCAAATcagc                    >  1:16739887/1‑35 (MQ=255)
                atatGCATTTCTCGGAAGGGAAAAAGCAAATcagc                    <  1:18757641/35‑1 (MQ=255)
                atatGCATTTCTCGGAAGGGAAAAAGCAAATcagc                    <  1:8675091/35‑1 (MQ=255)
                 tatGCATTTCTCGGAAGGGAAAAAGCAAATcagca                   >  1:4273435/1‑35 (MQ=255)
                 tatGCATTTCTCGGAAGGGAAAAAGCAAATcagca                   <  1:361100/35‑1 (MQ=255)
                 tatGCATTTCTCGGAAGGGAAAAAGCAAATcagca                   <  1:16093899/35‑1 (MQ=255)
                 tatGCATTTCTCGGAAGGGAAAAAGCAAATcagca                   >  1:2382191/1‑35 (MQ=255)
                  atGCATTTCTCGTAAGGGAAAAAGCAAATcagcag                  >  1:12662565/1‑35 (MQ=255)
                  atGCATTTCTCGGAAGGGAAAAAGCAAATcagcag                  <  1:11742338/35‑1 (MQ=255)
                  atGCATTTCTCGGAAGGGAAAAAGCAAATcagcag                  <  1:13982418/35‑1 (MQ=255)
                  atGCATTTCTCGGAAGGGAAAAAGCAAATcagcag                  >  1:602304/1‑35 (MQ=255)
                   tGCATTTCTCGGAAGGGAAAAAGCAAATcagaaga                 >  1:490587/1‑34 (MQ=255)
                   tGCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGt                 >  1:20251950/1‑35 (MQ=255)
                   tGCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGt                 >  1:9188720/1‑35 (MQ=255)
                    gCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTa                >  1:8098302/1‑35 (MQ=255)
                    gCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTa                >  1:472452/1‑35 (MQ=255)
                    gCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTa                <  1:13956980/35‑1 (MQ=255)
                     cATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTaa               >  1:10461325/1‑35 (MQ=255)
                      aTTTCTCGGAAGGGAAAAAGCAAATCAGCAGTaaa              <  1:14811781/35‑1 (MQ=255)
                       tttCTCGGAAGGGAAAAAGCAAATCAGCAGTAAAg             <  1:10013311/35‑1 (MQ=255)
                        ttCTCGGAAGGGAAAAAGCAAATCAGCAGTAAAGt            >  1:18801750/1‑35 (MQ=255)
                         tctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGtt           >  1:12265210/1‑35 (MQ=255)
                         tctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGtt           <  1:7254922/35‑1 (MQ=255)
                         tctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGtt           <  1:19247601/35‑1 (MQ=255)
                          ctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGttt          <  1:9324073/35‑1 (MQ=255)
                          ctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGttt          <  1:6566673/35‑1 (MQ=255)
                          ctcGGAAGGGAAAAAGCAAATCAGCAGTAAAGttt          >  1:10525676/1‑35 (MQ=255)
                           tcGGAAGGGAAAAAGCAAATCAGCAGTAAAGTTTa         >  1:7953804/1‑35 (MQ=255)
                            cggaagGGAAAAAGCAAATCAGCAGTAAAGTTTAt        <  1:5916252‑M2/29‑1 (MQ=255)
                            cggaagGGAAAAAGCAAATCAGCAGTAAAGTTTAt        <  1:4743684‑M2/29‑1 (MQ=255)
                            cggaagGGAAAAAGCAAATCAGCAGTAAAGTTTAt        >  1:7285139‑M2/7‑35 (MQ=255)
                            cggaagGGAAAAAGCAAATCAGCAGTAAAGTTTAt        >  1:19202480‑M2/7‑35 (MQ=255)
                             ggaagGGAAAAAGCAAATCAGCAGTAAAGTTTATg       <  1:13827298‑M2/30‑1 (MQ=255)
                             ggAAGGGAAAAATCAAGTCAGCAGTAAAGTTTATg       >  1:4579332/1‑35 (MQ=38)
                              gaagGGAAAAAGCAAATCAGCAGTAAAGTTTATGt      <  1:3873023‑M2/31‑1 (MQ=255)
                              gaagGGAAAAAGCAAATCAGCAGTAAAGTTTATGt      >  1:20398023‑M2/5‑35 (MQ=255)
                               aagGGAAAAAGCAAATCAGCAGTAAAGTTTATGTc     <  1:8389287‑M2/32‑1 (MQ=255)
                               aagGGAAAAAGCAAATCAGCAGTAAAGTTTATGTc     >  1:2566234‑M2/4‑35 (MQ=255)
                                agGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCg    <  1:7774996‑M2/33‑1 (MQ=255)
                                agGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCg    <  1:3592286‑M2/33‑1 (MQ=255)
                                agGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCg    <  1:914101‑M2/33‑1 (MQ=255)
                                agGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCg    >  1:13678101‑M2/3‑35 (MQ=255)
                                agGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCg    <  1:3694095‑M2/33‑1 (MQ=255)
                                 gGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCGa   >  1:15299185‑M2/2‑35 (MQ=255)
                                  ggAAAAAGCAAATCAGCAGTAAAGTTTATGTCGAt  <  1:1776387/35‑1 (MQ=255)
                                  ggAAAAAGCAAATCAGCAGTAAAGTTTATGTCGAt  <  1:5223359/35‑1 (MQ=255)
                                  |                                  
GATGTCAACGTCGGCAATATGCATTTCTCGGAAGGGAAAAAGCAAATCAGCAGTAAAGTTTATGTCGAT  >  REL606/3219712‑3219780

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