New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 = 23301757 (0.030)91 (0.410) 20/186 18.8 0.93 intergenic (+150/+162) RCAP_rcc02161/mrcA hypothetical protein/penicillin‑binding protein 1A
?NC_014034 2330176 = 7 (0.030)intergenic (+151/+161) RCAP_rcc02161/mrcA hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

GGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......CG.G.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATCACCG  >  NC_014034/2330076‑2330245
                                                                                                    |                                                                                      
ggCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGgc.gg                                                                                       <  1:2639075/101‑2 (MQ=255)
 gCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGgc.ggg                                                                                      >  2:3696737/1‑99 (MQ=255)
  cTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.g                                                                             <  1:426481/101‑1 (MQ=255)
  cTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.g                                                                             >  1:7118/1‑101 (MQ=255)
   ttGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.gg                                                                            <  1:1840779/101‑2 (MQ=255)
   ttGGCCCCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.gg                                                                            <  1:1117481/101‑2 (MQ=255)
    tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggc                                                                           <  1:302174/101‑3 (MQ=255)
    tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCCGGC.G.......Gg.ggg                                                                           >  2:1865817/1‑99 (MQ=255)
     ggCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggct                                                                          <  1:1978681/101‑4 (MQ=255)
     ggCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggcg                                                                          >  2:1953408/1‑98 (MQ=255)
     ggCCTCCGCCAAGCGCGGCAACGGCGCGCAGAGCGCCGCGCGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggct                                                                          <  2:3898903/101‑4 (MQ=39)
      gCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctc                                                                         <  1:2753167/101‑5 (MQ=255)
      gCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggcgc                                                                         >  1:932480/1‑97 (MQ=255)
      gCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggcgc                                                                         >  2:494278/1‑97 (MQ=255)
      gCCGCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctc                                                                         <  2:665626/101‑5 (MQ=255)
       ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggggtc                                                                        >  2:1092243/1‑96 (MQ=255)
       ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctcc                                                                        <  2:3801561/101‑6 (MQ=255)
        cTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctccg                                                                       <  2:1744987/101‑7 (MQ=255)
        cTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctccg                                                                       <  1:753159/101‑7 (MQ=255)
         tCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggggcccc                                                                      >  2:2589074/1‑94 (MQ=255)
         tCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctccgc                                                                      <  1:3085843/101‑8 (MQ=255)
            gCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......Gg.ggctccgcccc                                                                   <  1:3475737/101‑11 (MQ=37)
              cAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGAC.G.......GGCG.......CTCCGCCcccc                                                           >  2:4261945/1‑101 (MQ=255)
                  ggcggcAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGCCCCGGGCGG.......GG.G.......GCCCGCCcccccccc                                                       >  1:1612493/1‑98 (MQ=255)
                    cggcAACGGCGCGCAGAGCGCCGCACGGATCGCCCATTGGCGGGGGGGAATTTCGCCGCGCAGGCGCGGCGACCCGGCCGG.......GG.G.......CCCCGCCcccccacccc                                                     >  1:1345885/1‑96 (MQ=255)
                                gcAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTgc                                               <  2:216482/101‑1 (MQ=18)
                                   gagCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGcc                                            <  1:1519482/101‑1 (MQ=18)
                                    agtgccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCa                                           <  1:2989077/98‑1 (MQ=18)
                                    agCGCCGCAGGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCa                                           <  2:1982500/101‑1 (MQ=18)
                                    agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCa                                           <  2:1078889/101‑1 (MQ=18)
                                     gcgcCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCaa                                          <  1:2948450/101‑1 (MQ=18)
                                     gcgcCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCaa                                          <  1:370614/101‑1 (MQ=18)
                                      cgccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAg                                         <  2:2985986/101‑1 (MQ=18)
                                       gccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGa                                        <  2:407956/101‑1 (MQ=18)
                                        ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa                                       <  1:1565363/101‑1 (MQ=18)
                                        ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa                                       <  2:4380998/101‑1 (MQ=18)
                                         cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaa                                      <  2:75073/101‑1 (MQ=18)
                                         cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaa                                      <  1:3752309/101‑1 (MQ=18)
                                          gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCCCCCCCGGCGTATTTGCGCCAAGaaaa                                     <  2:3072877/101‑1 (MQ=18)
                                           cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaaa                                    <  2:4751583/101‑1 (MQ=17)
                                           cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaaa                                    <  1:2985766/101‑1 (MQ=17)
                                            aCGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAg                                   <  1:4113351/101‑1 (MQ=17)
                                            aCGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAg                                   <  2:3505186/101‑1 (MQ=17)
                                            aCGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAg                                   <  1:33983/101‑1 (MQ=17)
                                             ctgATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCCGCGTATTTGCGCCAAGAAAAAGc                                  >  1:3021591/3‑101 (MQ=12)
                                             cGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGc                                  >  2:2561713/1‑101 (MQ=17)
                                                aTCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgg                               >  1:2244136/1‑101 (MQ=17)
                                                aTCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgg                               <  1:3114109/101‑1 (MQ=18)
                                                aTCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......GG.GGCTCCCCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgg                               <  1:3591565/101‑1 (MQ=18)
                                                  cGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgggg                             >  1:2826356/1‑101 (MQ=17)
                                                   ggCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgc                            <  2:955726/101‑1 (MQ=17)
                                                   ggCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgc                            <  2:1704408/101‑1 (MQ=17)
                                                   ggCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCCGCGTATTTGCGCCAAGAAAAAGCCGGGgc                            >  2:2040180/1‑101 (MQ=17)
                                                    gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.A.......CCCCGCACCCCCCGCGGATTTGCGCCAAGAAAAAGCCGGGgcg                           >  1:319659/1‑101 (MQ=16)
                                                      cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcg                         <  2:2920984/101‑1 (MQ=17)
                                                         tGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCAt                      <  1:2800457/101‑1 (MQ=17)
                                                         gggCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCCCCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCAt                      <  1:1163136/100‑1 (MQ=17)
                                                            cGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCCGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATTC.g                  >  1:1865374/1‑101 (MQ=12)
                                                             ggAGAGGGAGTTCCCCGCGCAGTGGCGGCGACCCGGGC.G.......GG.GGCTCCCCCCCCGCCCCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.gg                 <  1:2562424/101‑1 (MQ=9)
                                                               agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.gggg               <  2:1920136/101‑1 (MQ=18)
                                                               agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.gggg               <  1:961118/101‑1 (MQ=18)
                                                                gagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGc              <  1:1865929/101‑1 (MQ=18)
                                                                 agGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGcc             <  2:1863102/101‑1 (MQ=17)
                                                                  ggAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCCCACCCCCCGCGGATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGccc            >  1:224916/1‑101 (MQ=12)
                                                                   gAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGGGCCG.C.......CCCCCCACCCCCCGCGGATTTGCGCCCAGAAAAAGCCGGGGGGCGCCCGC.GGGGgccc           >  2:4456391/1‑101 (MQ=9)
                                                                   gAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCCCACCCCCGGCGCATTTGCGCCAAGAAAAAACCCGGGCGCGCAAGC.GGGGgccc           >  2:2450071/1‑101 (MQ=9)
                                                                      tttCGCCGCGCAGGCGCGGCGACCCGGGC.G.......GG.GGGTCCCCCCCCCCACCCCCCGCGGATTTTCGCCAAGAAAAAGCCGGGGGGCGCATGCGGGGGCCCCgg         >  2:488425/1‑101 (MQ=12)
                                                                       ttCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGAt       <  2:4400361/101‑1 (MQ=18)
                                                                       ttCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGCCGCGCATGC.GGGGCCCCGGAt       <  1:3501813/101‑1 (MQ=17)
                                                                        tCGCCGCGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATc      <  1:238832/101‑1 (MQ=18)
                                                                         cgccgcGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATCa     >  2:4206489/1‑101 (MQ=18)
                                                                          gccgcGCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATCAc    <  2:641983/101‑1 (MQ=18)
                                                                            cgcgCAGGCGCGGCGACCCGGGC.GGGGGCTCCG.C.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATCACcg  <  1:2995793/101‑1 (MQ=18)
                                                                                                    |                                                                                      
GGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC.G.......CG.G.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGC.GGGGCCCCGGATCACCG  >  NC_014034/2330076‑2330245

Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG