New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	3216668 =	45 (1.390)	3 (0.100)	3/262	NT	7.1%	noncoding (68/78 nt)	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_hsa_tpiA	= 4614265	36 (1.170)					noncoding (27/388 nt)	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences

AGCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTGTC  >  NC_000913_3_hsa_tpiA/4614118‑4614406                                                                                                                                                    |                                                                                                                                              aGCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTACCGTGCCGTAGGCCGGATAAGGCGTTCCCGCCGCa                                                                                                                                              <  2:589413‑M2/149‑2 (MQ=255)     tAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGCGTTGCGCCGGGAACCGGCGGGAGAGATTGCGCAAGCGTTGCTTAATAAAACGTATAAGTTGTTTAACGTGTCGTAGGCCGGATAATGCGTTCACGCCGCatccg                                                                                                                                          <  2:375158‑M2/149‑6 (MQ=255)     tAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCatccg                                                                                                                                          <  2:528314‑M2/149‑6 (MQ=255)        ccGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCCCGCCGCatccggcc                                                                                                                                       <  2:485972‑M2/149‑9 (MQ=255)                     gCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGACCAAt                                                                                                                          >  1:218730/1‑149 (MQ=255)                           cGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGGCTGa                                                                                                                    >  1:275267/1‑149 (MQ=255)                            gtgtgtTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGACGGAAAAGGCGTTCACGCAGCATACGGGAGTTGGCGCACAATGCCTGAt                                                                                                                   >  1:473266/1‑149 (MQ=39)                             ggggtTGGCCGTGCTTGGCGAGTTGCGCCGGGAACCGGGGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATg                                                                                                                  <  1:212479/146‑1 (MQ=255)                                gtTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGACGGATAAAGCGTTCACGCCGCCTCCGGCACTTGGCGCACAACGCCTGATTCGa                                                                                                               >  2:47188/1‑149 (MQ=255)                                 ttCGCCGTGCTTTGCGAGGTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCCGGTGCggc                                                                                                              <  2:383723/149‑3 (MQ=255)                                        tGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAAc                                                                                                       >  1:439332/1‑149 (MQ=255)                                                   ttGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCa                                                                                            <  1:586232/149‑1 (MQ=255)                                                         cGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTa                                                                                      <  2:355217/149‑1 (MQ=255)                                                           ggAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACa                                                                                    <  2:421969/149‑1 (MQ=255)                                                               ccGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGtt                                                                                <  1:410059/149‑1 (MQ=255)                                                                 ggcggATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTtg                                                                              >  1:537425/1‑149 (MQ=255)                                                                  gcggATGAGATTGCGCAAGCGTTGCTTAATAACACGGATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTCCACACCGCATCCGGCAGTTGGCGCACAATGCCTGATCCGACGCTTAACGCGCCTTATCATCCCTCCAGGTTtgt                                                                             >  2:351182/1‑149 (MQ=25)                                                                   cggATGAGATTGCGGAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTtgtg                                                                            <  1:586920/149‑1 (MQ=255)                                                                    ggATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGc                                                                           <  1:485335/149‑1 (MQ=255)                                                                      aTGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCg                                                                         >  1:117930/1‑149 (MQ=255)                                                                                gcAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCGACAGGTTTGTGCCGAACCGTAGGc                                                               >  2:426403/1‑149 (MQ=255)                                                                                 cAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCGGGATAAGGCGTTCAAGCCGCATCCGGCAGTTGGCGCACGACACCATATGCGACGCTTAACGCGTCTTATCATGCCTGCCGGTTCTTGCCGCACCGtggacc                                                              >  1:141259/1‑144 (MQ=21)                                                                                  aaGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGCTAAGGCGTTAACGCCGCATCCGACAGTTGACGCACAATACCTGATGCGACGCTTAACCCGTCTTATCATGCCTACAGGTTTGTCCCCAACCGAAGTCCg                                                             >  2:287060/1‑149 (MQ=21)                                                                                  aaGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCg                                                             <  2:426949/149‑1 (MQ=255)                                                                                     ctttGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGAt                                                          <  1:229890/147‑1 (MQ=255)                                                                                          cTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGc                                                     >  1:233973/1‑149 (MQ=255)                                                                                           ttAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTGGGCTGGATAGGGCg                                                    >  2:558575/1‑149 (MQ=17)                                                                                             aataaCACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGtt                                                  >  1:284069/1‑149 (MQ=255)                                                                                               taaCACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGGGCCGAACCGTAGGCCGGATACGGCGttgc                                                >  1:220552/1‑147 (MQ=255)                                                                                                 acacGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGGACCGAAGGCCGGAGAAGGCGTTcctg                                              >  2:334971/1‑146 (MQ=255)                                                                                                   cagTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcgcc                                            <  1:249183/147‑1 (MQ=255)                                                                                                   acGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcgcg                                            >  1:42953/1‑148 (MQ=255)                                                                                                     gTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcgccgc                                          >  1:597501/1‑149 (MQ=255)                                                                                                          cGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCATTTCCGCCGCATCCg                                     >  2:321078/1‑149 (MQ=255)                                                                                                           gttgttTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                    >  1:551613/1‑149 (MQ=255)                                                                                                               tttAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCCAATCCGGCAGt                                >  1:77158/1‑149 (MQ=255)                                                                                                                    cGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGgcg                           <  1:373638/149‑1 (MQ=255)                                                                                                                              gCCGGATAAGGCGTTCACGCCGCatccggcctacgtgtgagatgagtccacgtttaaaaatcatttttacacttgcaagaacgctcatatcagatataaattagatatatctaattaagcaacaggaggctgatataaacaaacatcac                 <  2:581929‑M2/149‑127 (MQ=255)                                                                                                                                 ggATAAGGCGTTCACGCCGCatccggcctacgtgtgagatgagtccacgtttaaaaatcatttttacacttgcaagaacgctcatatcagatataaatt                                                                >  2:132614‑M2/1‑20 (MQ=255)                                                                                                                                 ggATAAGGCGTTCACGCCGCatccggcctacgtgtgagatgagtccacgtttaaaaatcatttttacacttgcaagaacgctcatatcagatataaatt                                                                <  1:132614‑M2/99‑80 (MQ=255)                                                                                                                                     aaGGCGTTCACGCCGCATCCGGCAGTTGGTGCACAATGCCGGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGa          <  1:284035/149‑1 (MQ=255)                                                                                                                                           ttCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTATGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTg    >  1:238228/1‑149 (MQ=255)                                                                                                                                             cACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTCTCATACCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCACCCCGCCGTTGGACCACACTGCCTGATGCCACGCttcac  >  2:100372/1‑146 (MQ=14)                                                                                                                                                    |                                                                                                                                              AGCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTGTC  >  NC_000913_3_hsa_tpiA/4614118‑4614406

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.