New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 3697156 =NA (NA)125 (1.570) 64/100 0.0 NA coding (280/4134 nt) rhsA rhsA element core protein RshA
?REL606 3893553 = NA (NA)intergenic (+8/‑48) kup/insJ‑5 potassium transporter/IS150 hypothetical protein

GCCAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAATA  >  REL606/3893503‑3893601
                                                  |                                                
gCCAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGAc                                                  >  1:4088478/1‑51 (MQ=255)
  cAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTg                                                >  1:1909281/1‑51 (MQ=255)
  cAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTg                                                >  1:4158026/1‑51 (MQ=255)
  cAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTg                                                <  1:6098321/51‑1 (MQ=255)
   aaaCAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGt                                               >  1:2910859/1‑51 (MQ=255)
   aaaCAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGt                                               >  1:2460827/1‑51 (MQ=255)
    aaCAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTa                                              <  1:6047626/51‑1 (MQ=255)
    aaCAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTa                                              <  1:335119/51‑1 (MQ=255)
      cAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACt                                            <  1:5054221/51‑1 (MQ=255)
      cAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACt                                            >  1:4342993/1‑51 (MQ=255)
       aGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTg                                           >  1:1665938/1‑51 (MQ=255)
       aGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTg                                           <  1:6156140/51‑1 (MQ=255)
        gggTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGc                                          <  1:501795/51‑1 (MQ=255)
         ggTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCa                                         <  1:836163/51‑1 (MQ=255)
         ggTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCa                                         <  1:5116198/51‑1 (MQ=255)
         ggTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCa                                         <  1:1353539/51‑1 (MQ=255)
           ttATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCAcc                                       >  1:3637117/1‑51 (MQ=255)
            tATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCAccc                                      <  1:1948045/51‑1 (MQ=255)
            tATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCAccc                                      >  1:1094520/1‑51 (MQ=255)
            tATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCAccc                                      >  1:548716/1‑51 (MQ=255)
             aTCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCa                                     <  1:6105604/51‑1 (MQ=255)
             aTCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCa                                     <  1:1284392/51‑1 (MQ=255)
             aTCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCa                                     <  1:3417591/51‑1 (MQ=255)
             aTCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCa                                     <  1:6282076/51‑1 (MQ=255)
             aTCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCa                                     <  1:5056195/51‑1 (MQ=255)
                gAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAttt                                  >  1:4864559/1‑51 (MQ=255)
                gAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAttt                                  <  1:2230028/51‑1 (MQ=255)
                gAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAttt                                  >  1:6897465/1‑51 (MQ=255)
                gAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAttt                                  >  1:757620/1‑51 (MQ=255)
                 aaCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAtttt                                 <  1:1903328/51‑1 (MQ=255)
                 aaCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAtttt                                 >  1:3074057/1‑51 (MQ=255)
                 aaCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAtttt                                 <  1:6118390/51‑1 (MQ=255)
                 aaCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAtttt                                 <  1:2056706/51‑1 (MQ=255)
                 aaCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCAtttt                                 <  1:5347137/51‑1 (MQ=255)
                  aCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttg                                >  1:1376531/1‑51 (MQ=255)
                  aCTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttg                                >  1:6175840/1‑51 (MQ=255)
                   cTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttgt                               <  1:5888390/51‑1 (MQ=255)
                   cTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttgt                               >  1:7051758/1‑51 (MQ=255)
                    tGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGc                                          <  1:7119390/39‑1 (MQ=255)
                    tGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttgtt                              >  1:1778447/1‑51 (MQ=255)
                     gggTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTttgttg                             <  1:6701132/51‑1 (MQ=255)
                      ggTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTgg                            <  1:2822161/51‑1 (MQ=255)
                      ggTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTgg                            <  1:5518233/51‑1 (MQ=255)
                       gTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGa                           <  1:492259/51‑1 (MQ=255)
                       gTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGa                           <  1:1318754/51‑1 (MQ=255)
                        tACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGAc                          >  1:1708229/1‑51 (MQ=255)
                         aCTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACg                         >  1:868518/1‑51 (MQ=255)
                          cTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGa                        >  1:5062319/1‑51 (MQ=255)
                          cTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGa                        >  1:4785886/1‑51 (MQ=255)
                           tCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGAt                       >  1:2585658/1‑51 (MQ=255)
                           tCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGAt                       <  1:3706217/51‑1 (MQ=255)
                            cAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATg                      <  1:1112617/51‑1 (MQ=255)
                            cAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATg                      >  1:6489116/1‑51 (MQ=255)
                            cAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATg                      <  1:6934025/51‑1 (MQ=255)
                             aGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGa                     <  1:5068275/51‑1 (MQ=255)
                             aGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGa                     >  1:5373033/1‑51 (MQ=255)
                              ggTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGaa                    <  1:1196949/51‑1 (MQ=255)
                              ggTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGaa                    <  1:5870255/51‑1 (MQ=255)
                              ggTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGaa                    <  1:73816/51‑1 (MQ=255)
                               gTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGaaa                   <  1:6232133/51‑1 (MQ=255)
                                tCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAAt                  >  1:1611691/1‑51 (MQ=255)
                                tCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAAt                  <  1:3402796/51‑1 (MQ=255)
                                tCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAAt                  >  1:7241292/1‑51 (MQ=255)
                                tCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAAt                  >  1:4764188/1‑51 (MQ=255)
                                tCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAAt                  >  1:3884355/1‑51 (MQ=255)
                                 tgAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATg                 <  1:4644043/50‑1 (MQ=255)
                                 cGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATg                 <  1:1657444/51‑1 (MQ=255)
                                 cGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATg                 <  1:5284079/51‑1 (MQ=255)
                                  gAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATgg                <  1:352128/51‑1 (MQ=255)
                                   aaaTCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGa               >  1:307292/1‑51 (MQ=255)
                                    aaTCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGaa              <  1:2194596/51‑1 (MQ=255)
                                     aTCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAAt             >  1:4350688/1‑51 (MQ=255)
                                     aTCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAAt             >  1:5283302/1‑51 (MQ=255)
                                      tCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATa            <  1:2203008/51‑1 (MQ=255)
                                      tCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATa            <  1:5499956/51‑1 (MQ=255)
                                      tCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATa            <  1:2063118/51‑1 (MQ=255)
                                      tCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATa            <  1:2270214/51‑1 (MQ=255)
                                       cTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAg           >  1:4635512/1‑51 (MQ=255)
                                         aaCGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATa            <  1:2925144/48‑1 (MQ=255)
                                          aCGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGccc        >  1:4461796/1‑51 (MQ=255)
                                          aCGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGccc        <  1:7007078/51‑1 (MQ=255)
                                          aCGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGccc        >  1:4292986/1‑51 (MQ=255)
                                          aCGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGccc        <  1:7191698/51‑1 (MQ=255)
                                           cGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGcccc       >  1:6720716/1‑51 (MQ=255)
                                           cGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGcccc       >  1:6687293/1‑51 (MQ=255)
                                           cGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGcccc       >  1:6529167/1‑51 (MQ=255)
                                            gCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCt      <  1:5765465/51‑1 (MQ=255)
                                             ccAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTa     >  1:4956105/1‑51 (MQ=40)
                                             ccAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTa     >  1:4020073/1‑51 (MQ=40)
                                              cAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTaa    <  1:894067/51‑1 (MQ=38)
                                              cAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTaa    >  1:5837419/1‑51 (MQ=38)
                                              cAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTaa    <  1:5529550/51‑1 (MQ=38)
                                               aGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAat   >  1:6644406/1‑51 (MQ=35)
                                               aGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAat   <  1:776138/51‑1 (MQ=35)
                                               aGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAat   <  1:2664828/51‑1 (MQ=35)
                                               aGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAat   <  1:2958245/51‑1 (MQ=35)
                                                gACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAata  <  1:5119266/51‑1 (MQ=33)
                                                gACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAata  <  1:2816290/51‑1 (MQ=33)
                                                  |                                                
GCCAAACAGGGTTATCGAACTGGGTACTCAGGTCGAAATCTAACGCCAGACTGTACTGCACCCATTTTGTTGGACGATGAAATGGAATAGCCCCTAATA  >  REL606/3893503‑3893601

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.