New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	4094319 =	NA (NA)	4 (0.120)	4/280	4.4	NA	noncoding (4/402 nt)	REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences	REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences
	?	NC_000913_3_hsa_tpiA	4285319 =	NA (NA)					noncoding (36/77 nt)	REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.

ATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCGGCAAGCGTCGA  >  NC_000913_3_hsa_tpiA/4285178‑4285466                                                                                                                                              |                                                                                                                                                    aTAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGc                                                                                                                                              <  2:388317/149‑1 (MQ=255)       agggCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATg                                                                                                                                        <  2:142278/146‑1 (MQ=255)       aGTGCCATTCATCTCAGATTCTGCAGAGGTAATGGAGGGATTGTTTTAATTCCCGATACCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATg                                                                                                                                        <  2:479947/149‑1 (MQ=39)           ccATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGAc                                                                                                                                    >  1:337333/1‑149 (MQ=255)             aTTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCCCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATACCTGATCCGACGc                                                                                                                                  >  2:281848/1‑149 (MQ=255)                 atcaCAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTc                                                                                                                              <  1:103698/149‑1 (MQ=255)                 atcaCAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGCCGTTTACGCCGCATCCGGCAAGCAATGCCTGATCCGACGGTggc                                                                                                                              >  1:557898/1‑147 (MQ=255)                   cacaGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTcgc                                                                                                                            >  2:407262/1‑149 (MQ=255)                   cacaGATTCCCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTcgc                                                                                                                            <  2:197265/149‑1 (MQ=255)                    acaGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGtgccg                                                                                                                           >  2:587090/1‑145 (MQ=255)                            tcCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCa                                                                                                                   >  1:581153/1‑149 (MQ=255)                                           gggATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTTCAAACCGtt                                                                                                    >  1:38551/1‑149 (MQ=255)                                           gggATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGtt                                                                                                    >  2:522323/1‑149 (MQ=255)                                            ggATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGc                                                                                                                >  2:339230/1‑136 (MQ=255)                                            ggATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGc                                                                                                                <  1:339230/136‑1 (MQ=255)                                                  ttttAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGt                                                                                                                          >  1:461505/1‑120 (MQ=255)                                                  ttttAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGt                                                                                                                          <  2:461505/120‑1 (MQ=255)                                                  ttttAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACt                                                                                             >  1:73927/1‑149 (MQ=255)                                                   tttAATTCCCGCTCGCTTGTGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTGATCAGGCCTACAAACCGTTACCGACTc                                                                                            <  2:588318/149‑1 (MQ=255)                                                           ccGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGGTAAGGCGTTTACGCCGCATAAGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGCCCTACCAACGGTTCCCGACTCTCATCgag                                                                                    >  2:498063/1‑147 (MQ=25)                                                           ccGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGAGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCggg                                                                                    <  2:581153/149‑1 (MQ=255)                                                                  cTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATtgt                                                                             >  2:444404/1‑149 (MQ=255)                                                                   ttATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAACCCGTTCCCGACTCGCATCCGCCAATtgcg                                                                            >  2:118864/1‑147 (MQ=255)                                                                      tGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCTTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCGATTGTGGGt                                                                         >  1:394967/1‑149 (MQ=255)                                                                         gagaAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTTTGGGTTAc                                                                      >  2:260943/1‑149 (MQ=255)                                                                             aGGTTAACGCGTGGGTAACCCTTCCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATg                                                                  <  2:557898/149‑1 (MQ=255)                                                                               gTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGt                                                                                                     >  1:526219/1‑112 (MQ=255)                                                                               gTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGt                                                                                                     <  2:526219/112‑1 (MQ=255)                                                                               gTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGc                                                                >  1:563679/1‑149 (MQ=255)                                                                                     gCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATcgcg                                                          >  2:88594/1‑149 (MQ=255)                                                                                      ctagggTAACCCTTGCGGAATGTAGGCCGGATAAGGCGTTTACGCGGAGTCCTGGAAGCGAGGGCTGATGCGACGCTGTAGCGTCTTATCAGGCCTCCAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGa                                                         <  2:216034/146‑1 (MQ=255)                                                                                        cGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATa                                                       <  1:357461/149‑1 (MQ=255)                                                                                         gggTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAg                                                      >  2:384200/1‑149 (MQ=255)                                                                                              aCCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATGAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACAATGGCATCGCGGTAGCCTGc                                                 <  2:55557/149‑1 (MQ=255)                                                                                                gcTTGCCGAATGTAGGCCGGCTAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGCTGCGACGCTGTCGTGTCTTATCAGGCCGACACACCCTTACCGACTCGCATCGGACGCTTGCGGGTTCCGCTGCCAGCCCCCTAGCCtccct                                               >  2:553174/2‑145 (MQ=18)                                                                                                ccTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCtt                                               >  1:337363/1‑149 (MQ=255)                                                                                                  ttGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTcct                                             >  2:101589/1‑149 (MQ=255)                                                                                                    gCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTctct                                           <  1:444404/149‑1 (MQ=255)                                                                                                         aTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAag                                      <  1:10906/149‑1 (MQ=255)                                                                                                            tAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCGGCTTCTCTTCAagcag                                   <  1:522323/149‑1 (MQ=255)                                                                                                                ccGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAACAGCTtc                               >  2:570075/1‑149 (MQ=255)                                                                                                                   gATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTtct                                             >  2:87582/1‑132 (MQ=255)                                                                                                                   gATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTtct                                             <  1:87582/132‑1 (MQ=255)                                                                                                                      aaGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACt                         <  1:407262/149‑1 (MQ=255)                                                                                                                         gCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCgg                                                                                     <  1:439222/86‑1 (MQ=255)                                                                                                                         gCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCgg                                                                                     >  2:439222/1‑86 (MQ=255)                                                                                                                                  tcgcATCCGGCAATGAAGGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTATCGTCTACGCCAGGATCg             <  2:289060/148‑1 (MQ=255)                                                                                                                                  ccgcATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCg             >  2:558558/1‑149 (MQ=255)                                                                                                                                          ggCCATCAATGCCTGATGCAACGCTGTCACGTCTTATCAGGCCTACAAACCGTTACCGACTCGCAGCGGGCTATTGTGGGTTACGATCGCATCCCTATAGCCTGCTTCTCTTCCATCCGCTTGCCGCCTACGCCAGGATCGGCAAGCGt     >  2:297344/1‑149 (MQ=255)                                                                                                                                          ggCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTAACGACTCGCATCGGGCAATGGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCGTCCAGCAGCTTCCCGACTTCGCCCGGATCGGCAAGCGt     >  1:197102/1‑149 (MQ=38)                                                                                                                                             aatcaatGCCTGATGGGACGCGGTCGCGTCTGATCAGGCCTACAAACCGTGACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCGGCAAGCGTCGa  <  2:38551/149‑1 (MQ=255)                                                                                                                                              |                                                                                                                                                    ATAAATAGTGCCATTCATCACAGATTCTCCAGAGGTAATGTAGGGATTGTTTTAATTCCCGCTCCCTTATGGGAGAAGGTTAACGCTCGGGTAACCCTTGCCGAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGGCCTACAAACCGTTACCGACTCGCATCGGGCAATTGTGGGTTACGATGGCATCGCGATAGCCTGCTTCTCTTCAAGCAGCTTCTCGACTACGCCAGGATCGGCAAGCGTCGA  >  NC_000913_3_hsa_tpiA/4285178‑4285466

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.