New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 2304722 =23 (0.150)12 (0.080) 7/252 NT 18.5% noncoding (306/655 nt) REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences
?NC_000913 3042447 = 84 (0.560)noncoding (127/155 nt) REP210 (repetitive extragenic palindromic) element; contains 3 REP sequences REP210 (repetitive extragenic palindromic) element; contains 3 REP sequences

CATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAAC  >  NC_000913/2304450‑2304909
                                                                                                                                                                                                                                                                                |                                                                                                                                                                                           
cATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTAt                                                                                                                                                                                            <  2:404055/274‑1 (MQ=40)
                      ccTGATGCGACGCTGGCGCTTCTTAGCAGGCCTACACCGCTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTg                                                                                                                                                                     <  2:518622/275‑1 (MQ=38)
                                             tatgcggCATACACCGCTGTGAAGGGCGGAACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATaa                                                                                                                                               <  2:280963/269‑1 (MQ=255)
                                                             cTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCTGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGCTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCAGGAGGTTGGATCAGGCGGTTACGCCGCAt                                                                                                                               >  2:370295/1‑274 (MQ=255)
                                                             cTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTCGGTTGGATAAGGCGGTTACGCCGCAt                                                                                                                               >  2:262957/1‑274 (MQ=38)
                                                             cTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCAt                                                                                                                               >  2:345656/1‑274 (MQ=38)
                                                             cTGTGAAGTGCGGCACCCCGTAGGACAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCCTGCGCGTCTTATCAGGCCTACCCCGCTGTTAAGTGCTCCCCCCCGTAGGTTGGATAAGGCGGTTACGCCGCaa                                                                                                                               >  2:445700/1‑273 (MQ=255)
                                                                                             ggCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATg                                                                                              <  1:102602/275‑1 (MQ=35)
                                                                                                                          cccGAGCGGGTTGCCTGATGCGACGCTGGCGCTTCTTATAAGGCCTACACCGCTTGGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTaca                                                                 <  2:350378/275‑1 (MQ=255)
                                                                                                                                  caaacgcattccatacaaccatgccatctggcacggcttcgtgctcggcggtagtgtgtgccactttctggcgatctatttgtatattgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgca                                                                                                                                                                                             >  2:66675‑M1/143‑143 (MQ=255)
                                                                                                                                    ttGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGa                                                        >  2:490768/1‑274 (MQ=39)
                                                                                                                                         cgATGCGCCGGTGGCCGGTCTGACCCGGCCTAACCCGCTGGGAAGTGCGCCACCCCGTAGGTCGGATAAGGCGGTTCGGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCGCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCt                                                  <  4:345655/274‑1 (MQ=14)
                                                                                                                                                      atgccatctggcacggcttcgtgctcggcggtagtgtgtgccactttctggcgatctatttgtatattgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgcATCAg                                                                                                                                                                                         <  5:309040‑M1/5‑1 (MQ=255)
                                                                                                                                                      atgccatctggcacggcttcgtgctcggcggtagtgtgtgccactttctggcgatctatttgtatattgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgcATCAg                                                                                                                                                                                         >  6:309040‑M1/123‑127 (MQ=255)
                                                                                                                                                                              cTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGCTGAGGCGGTTACGCCGCAt              >  2:474609/1‑274 (MQ=255)
                                                                                                                                                                                        agccACCCCGTGTAGCGGATAAGGCGGTTACGCTGCAGCCGAAATCAAACGCCCAAGGCGGTTGCCTGATGCGAGGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTACACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGGCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTa    <  2:409822/272‑1 (MQ=14)
                                                                                                                                                                                           cACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACAGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCTCATCCCACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGACGTGCTCCACCCCGTCGGTCGGCTAAGGCGGTTGCGCCGCATCCGACCTCTAAc  >  1:108045/1‑273 (MQ=255)
                                                                                                                                                                                             ccccGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTc                                                                               >  2:240520/1‑194 (MQ=34)
                                                                                                                                                                                                                   ttACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCg                                                                                                              >  2:42621/1‑141 (MQ=37)
                                                                                                                                                                                                                       attgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgcATCa                                                                                                                                                                                          <  7:684900‑M1/4‑1 (MQ=255)
                                                                                                                                                                                                                       attgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgcATCa                                                                                                                                                                                          >  8:684900‑M1/58‑61 (MQ=255)
                                                                                                                                                                                                                        ttgggcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgcATCAg                                                                                                                                                                                         <  2:163072‑M1/5‑1 (MQ=255)
                                                                                                                                                                                                                            gcaggcgtaatgggtatgcctttgtaggcctgataagacgcgccagcgtcgca                                                                                                                                                                                             >  4:158438‑M1/53‑53 (MQ=255)
                                                                                                                                                                                                                                 aCATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACg                                                                                         <  7:1048139/148‑1 (MQ=39)
                                                                                                                                                                                                                                              aaGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACa                                                                                                                         >  4:490342/1‑103 (MQ=32)
                                                                                                                                                                                                                                                    gTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGgc                                                                                    >  2:198778/1‑134 (MQ=37)
                                                                                                                                                                                                                                                        ccTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt                                                                                <  4:198777/134‑1 (MQ=37)
                                                                                                                                                                                                                                                         ctgataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa                                                                                                                                                >  5:322631‑M1/24‑69 (MQ=255)
                                                                                                                                                                                                                                                         ctgataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATa                                                                                                                                                <  6:322631‑M1/46‑1 (MQ=255)
                                                                                                                                                                                                                                                         ctgataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAgg                                                                                                                                             >  5:1111835‑M1/24‑72 (MQ=255)
                                                                                                                                                                                                                                                         ctgataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAgg                                                                                                                                             <  6:1111835‑M1/49‑1 (MQ=255)
                                                                                                                                                                                                                                                            ataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt                                                                                                       >  8:359513‑M1/21‑107 (MQ=255)
                                                                                                                                                                                                                                                            ataagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGt                                                                                                       <  7:359513‑M1/87‑1 (MQ=255)
                                                                                                                                                                                                                                                             taagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCAcccc                                                                                                                                                            >  5:182357‑M1/20‑53 (MQ=255)
                                                                                                                                                                                                                                                             taagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCAcccc                                                                                                                                                            <  6:182357‑M1/34‑1 (MQ=255)
                                                                                                                                                                                                                                                             taagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCaa                                                                                                                    <  7:587065‑M1/74‑1 (MQ=255)
                                                                                                                                                                                                                                                             taagacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCaa                                                                                                                    >  8:587065‑M1/20‑93 (MQ=255)
                                                                                                                                                                                                                                                                gacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTgg                                                                                                                                                   >  7:804039‑M1/17‑59 (MQ=255)
                                                                                                                                                                                                                                                                gacgcgccagcgtcgcATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTgg                                                                                                                                                   <  8:804039‑M1/43‑1 (MQ=255)
                                                                                                                                                                                                                                                                          cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTg                                                                                                 >  6:27506/1‑99 (MQ=255)
                                                                                                                                                                                                                                                                          cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTg                                                                                                 <  5:27506/99‑1 (MQ=255)
                                                                                                                                                                                                                                                                          cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt                                                                                <  7:144013/116‑1 (MQ=39)
                                                                                                                                                                                                                                                                          cgTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt                                                                                >  8:144013/1‑116 (MQ=255)
                                                                                                                                                                                                                                                                            tCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt                                                                                >  6:83122/1‑114 (MQ=40)
                                                                                                                                                                                                                                                                            tCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGt                                                                                <  5:83122/114‑1 (MQ=40)
                                                                                                                                                                                                                                                                             cTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGcc                                                                                                          <  7:1028536/87‑1 (MQ=255)
                                                                                                                                                                                                                                                                             cTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGcc                                                                                                          >  8:1028536/1‑87 (MQ=255)
                                                                                                                                                                                                                                                                                |                                                                                                                                                                                           
CATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCGGCACCCCGTAGGTCAGACAAGGCGGTCACGCCGCATCCGACATCCAACGCCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAACGCCCAAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTTGGATAAGGCGGTTACGCCGCATCCGACATCCAACGTCCGAGCCGGTTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACACCGCTGTGAAGTGCTCCACCCCGTAGGTCGGATAAGGCGGTTACGCCGCATCCGACATCTAAC  >  NC_000913/2304450‑2304909

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ 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.