New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 230484148 (0.590)14 (0.190) 7/164 NT 24.1% noncoding (425/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
?NC_000913 = 2304922 NA (NA)noncoding (506/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences

AAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGC  >  NC_000913/2304742‑2304940
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aaGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGC                                                                                                     <  2:681370‑M1/100‑1 (MQ=255)
 aGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGcc                                                                                                    <  1:515166/100‑1 (MQ=255)
 aGTGCGACACCCCGAAGGGTGGAGAAGGCGGTTACGCCGCATCCGACACCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGcc                                                                                                    <  1:1491945/100‑1 (MQ=14)
   tGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTa                                                                                                  >  1:1457392/1‑100 (MQ=255)
   tGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTa                                                                                                  >  1:1492070/1‑100 (MQ=255)
    gCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTac                                                                                                 >  1:1934768/1‑100 (MQ=255)
    gCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTac                                                                                                 >  1:1646760/1‑100 (MQ=255)
    gCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTac                                                                                                 <  2:1128114/100‑1 (MQ=255)
     cTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTac                                                                                                 >  2:816433/1‑99 (MQ=255)
      tCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTacac                                                                                               >  1:280174/1‑100 (MQ=255)
       ccACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTac                                                                                                 >  2:41656/1‑97 (MQ=255)
       ccACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAcc                                                                                              <  1:949765/100‑1 (MQ=255)
       ccACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAcc                                                                                              >  2:1960497/1‑100 (MQ=255)
         aCCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGc                                                                                            <  1:723568/100‑1 (MQ=255)
         aCCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGc                                                                                            >  1:1521865/1‑100 (MQ=255)
         aCCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGCCCTACACCGc                                                                                            >  1:180526/1‑100 (MQ=255)
          ccccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCt                                                                                           >  1:1385509/1‑100 (MQ=255)
           cccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTTCCCCGCt                                                                                           >  2:1736548/1‑99 (MQ=255)
           cccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtg                                                                                          >  1:1982086/1‑100 (MQ=255)
           cccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtg                                                                                          >  2:1893100/1‑100 (MQ=255)
            ccGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCCGGCCTACACCGCtg                                                                                          >  1:617687/1‑99 (MQ=255)
             cGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCtgtg                                                                                        <  1:1136941/100‑1 (MQ=255)
              gTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGa                                                                                       <  2:2018979/100‑1 (MQ=255)
               tAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGaa                                                                                      <  2:16986/100‑1 (MQ=255)
                aGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAg                                                                                     <  2:137386/100‑1 (MQ=255)
                  gTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAGACCGCTGTGACGTg                                                                                   >  2:358906/1‑100 (MQ=255)
                   ttGGATAAGGCGGTTACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGc                                                                                  <  1:515253/100‑1 (MQ=25)
                   ttGGATAAGGCGGTTACGCCGCATCCGACAACCGACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGATGTGACGTGc                                                                                  >  2:1474504/1‑100 (MQ=14)
                    tGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCt                                                                                 >  1:56226/1‑100 (MQ=255)
                     ggATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTc                                                                                >  1:640561/1‑100 (MQ=255)
                      gATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTcc                                                                               <  1:2237266/100‑1 (MQ=40)
                      gATAAGGCGGTTACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCt                                                                                 <  2:1957318/98‑1 (MQ=17)
                        tAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCAc                                                                             >  2:576356/1‑100 (MQ=40)
                          aGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCAccc                                                                           <  1:1642430/100‑1 (MQ=38)
                           ggCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCAcccc                                                                          >  2:1123209/1‑100 (MQ=38)
                            gCGGTTACGCCGCATCCGACATCCAACGTCCGTGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCg                                                                         <  2:510790/100‑1 (MQ=25)
                             cGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGt                                                                        <  2:879317/100‑1 (MQ=38)
                             cGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGt                                                                        >  2:1683883/1‑100 (MQ=38)
                             aggTTACGCCGCATCCGACATCCAACGACCGCGCCCGTTGCCTGATGCGCCGCTGGCGCGTCTTATCAGCCCTCCCCCCCTGTGAAGTGCCCCACCCCGt                                                                        >  2:1568537/2‑100 (MQ=11)
                               gTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAg                                                                      >  2:1237600/1‑100 (MQ=38)
                                    gccgcATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCgg                                                                 <  1:882367/100‑1 (MQ=32)
                                    gccgcATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCgg                                                                 >  2:1934895/1‑100 (MQ=33)
                                       gcATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa                                                              >  1:1139888/1‑100 (MQ=33)
                                       gcATCCGACACCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa                                                              <  1:308869/100‑1 (MQ=17)
                                        cATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATaa                                                             <  1:901698/100‑1 (MQ=32)
                                           ccGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGc                                                          <  1:1901827/100‑1 (MQ=32)
                                           ccGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGACTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGc                                                          >  2:1238607/1‑100 (MQ=18)
                                            cGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGCTAAGGCg                                                         >  2:1394482/1‑100 (MQ=18)
                                            cGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCg                                                         <  1:1182689/100‑1 (MQ=32)
                                            agACAACCAACGTCCGAGCCGGTTGCATGATGCGACGCTCGCGCGTCTTATAAGGCCTCCACCGATGTGCAGTGCTCCACCCCATAGGTAGGATa                                                              >  2:1212203/2‑95 (MQ=25)
                                              acgacgctcttccgatctggtTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatc                                                       <  2:28035‑M1/90‑47 (MQ=255)
                                              aCATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGt                                                       <  1:792623/100‑1 (MQ=32)
                                                attcAACGTCTTAGCCGGTTGCTTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTa                                                     <  1:313369/97‑1 (MQ=11)
                                                  ccAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcg                                                   >  1:1285664/1‑100 (MQ=32)
                                                  ccAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcg                                                   >  1:216990/1‑100 (MQ=33)
                                                   cAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcgc                                                  >  2:1656230/1‑100 (MQ=33)
                                                   cAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcgc                                                  <  2:190908/100‑1 (MQ=32)
                                                    aaCGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcgcc                                                 >  2:1351383/1‑100 (MQ=32)
                                                      cGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTAcgccgc                                               <  2:1545824/100‑1 (MQ=32)
                                                              ccGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtgga                                       >  1:1027278‑M1/1‑38 (MQ=255)
                                                                ggTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagc                                     >  1:1126277‑M1/1‑36 (MQ=255)
                                                                ggTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggctcgggcgttggatgtcggatgcggcgtgaccgccttgtctgacctacggggtgccg                                      >  1:1146711‑M1/1‑36 (MQ=255)
                                                                ggTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggctcgggcgttagatgtcggatgcggcgtaaccgccctatcccccctccgggctggcgc                                     >  2:1717191‑M1/1‑36 (MQ=255)
                                                                ggTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggctcggacgttggatgtcggatgcggcgtaaccgccttatccaacctacggggtggagc                                     >  1:828319‑M1/1‑36 (MQ=255)
                                                                    gCCTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcactt                                 >  1:779698‑M1/1‑32 (MQ=255)
                                                                     ccTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttc                                >  1:8823‑M1/1‑31 (MQ=255)
                                                                     ccTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttc                                >  1:2060761‑M1/1‑31 (MQ=255)
                                                                     ccTGATGCGACGCTGGCGCGTCTTATCAGGCaaccggctcgggcgttggatgttggatgcggcgtaaccgccttatccaacctacggggtggagcacttc                                >  2:2248552‑M1/1‑31 (MQ=255)
                                                                     ccTGATGCGACGCTGGCGCG‑‑‑‑‑TCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagc                           >  2:1688541‑M1/1‑26 (MQ=255)
                                                                       tGATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcac                              >  2:108632‑M1/1‑29 (MQ=255)
                                                                        gATGCGACGCTGGCGCGTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcaca                             >  2:1048122‑M1/1‑28 (MQ=255)
                                                                                      gcgTCTTATCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctg               <  1:1048124‑M1/100‑87 (MQ=255)
                                                                                              tCAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacg       >  1:1351389‑M1/1‑6 (MQ=255)
                                                                                               cAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgc      >  2:1089588‑M1/1‑5 (MQ=255)
                                                                                               cAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgc      >  2:2155687‑M1/1‑5 (MQ=255)
                                                                                               cAGGCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgc      >  1:2098569‑M1/1‑5 (MQ=255)
                                                                                               cAGGCaaccggctagggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtcgagcacttcacagcggtgtaggcctgataagacgc      <  2:1015091‑M1/100‑96 (MQ=255)
                                                                                                 ggCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgcgc    >  2:244734‑M1/1‑3 (MQ=255)
                                                                                                 ggCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgcgc    >  1:242187‑M1/1‑3 (MQ=255)
                                                                                                  gCaaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgcgcc   <  1:2023088‑M1/100‑99 (MQ=255)
                                                                                                   caaccggcttgggcgttagatgtcggatgcggcgtaaccgccttatccgacctacggggtggagcacttcacagcggtgtaggcctgataagacgcgcc   >  2:282406‑M1/1‑1 (MQ=255)
                                                                                                   caaccggcttgggcgttagatgtcggatgcggcgtaaccaccttatccgacctacggggtggagcacttcacagcggagtaggcctgataagacgcgcca  <  2:1301063‑M1/100‑100 (MQ=255)
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AAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGC  >  NC_000913/2304742‑2304940

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.