New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	2568139 =	NA (NA)	4 (0.240)	4/258	1.8	NA	noncoding (1/183 nt)	REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences
	?	NC_000913_3_pae_pgi	2568169 =	NA (NA)					noncoding (31/183 nt)	REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences	REP178 (repetitive extragenic palindromic) element; contains 4 REP sequences

TACCGAACTTACCGAGGAAACGAGCAGAACCGCCGAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGC  >  NC_000913_3_pae_pgi/2567993‑2568278                                                                                                                                                   |                                                                                                                                            gcgacgcttgccgcatcttatccagcctacgggattgcacatgtagggcggataaggcgttcacgccgcatccgccagtggcgcggtgcaattgccggatgcgacgcttgccgcgtcttatccagcctacgggattgcacatgtagGGCg                                                                                                                                          <  3:100528‑M1/4‑1 (MQ=255)     gAACTTACCGAGGAAACGAGCAGAACCGCCGAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATg                                                                                                                                      >  4:11565/1‑150 (MQ=255)      aaCTTACCGAGGAAACGAGCAGAACCGCCGAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATgc                                                                                                                                     <  1:91247/150‑1 (MQ=255)                               cgccgAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTAc                                                                                                            >  1:143546/1‑150 (MQ=255)                               cgccgAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTAc                                                                                                            >  1:172364/1‑150 (MQ=255)                                 ccgAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCGTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACAt                                                                                                          >  1:148831/1‑150 (MQ=255)                                 ccgAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCATGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACAt                                                                                                          >  1:148833/1‑150 (MQ=255)                                       acatgtagggcggataaggcgttcacgccgcatccgccagtggcgcggtgcaattgccggatgcgacgcttgccgcgtcttatccagcctacgggattgcacatgtagGGCGGATGCGGCGTaa                                                                                                                              <  1:54758‑M1/16‑1 (MQ=255)                                       acatgtagggcggataaggcgttcacgccgcatccgccagtggcgcggtgcaattgccggatgcgacgcttgccgcgtcttatccagcctacgggattgcacatgtagGGCGGATGCGGCGTaa                                                                                                                              >  2:54758‑M1/109‑124 (MQ=255)                                        gCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAAt                                                                                                   <  3:11565/150‑1 (MQ=255)                                         cGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATc                                                                                                  <  1:126475/150‑1 (MQ=255)                                         cGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATc                                                                                                  <  1:126466/150‑1 (MQ=255)                                           aCAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTATTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATccc                                                                                                <  3:102220/150‑1 (MQ=255)                                                                  aTCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCaa                                                                         >  4:102598/1‑150 (MQ=255)                                                                    cAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAg                                                                                  >  2:135890/1‑139 (MQ=255)                                                                    cAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAg                                                                                  <  1:135890/139‑1 (MQ=255)                                                                            cagtggcgcggtgcaattgccggatgcgacgcttgccgcgtcttatccagcctacgggattgcacatgtagGGCGGATGCGGCGTAAACGCCTTATCCGcc                                                                                                                >  2:13852‑M1/72‑101 (MQ=255)                                                                            cagtggcgcggtgcaattgccggatgcgacgcttgccgcgtcttatccagcctacgggattgcacatgtagGGCGGATGCGGCGTAAACGCCTTATCCGcc                                                                                                                <  1:13852‑M1/30‑1 (MQ=255)                                                                                                    tttCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGc                                       <  4:105488/150‑1 (MQ=255)                                                                                                      tCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCgg                                     <  3:56761/150‑1 (MQ=255)                                                                                                               cccATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGt                            <  3:102598/150‑1 (MQ=255)                                                                                                                     gCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGc                      <  2:172364/150‑1 (MQ=255)                                                                                                                      ccTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGCACGcc                     >  4:100528/1‑150 (MQ=255)                                                                                                                        tttACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCACTCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCtt                   <  4:104396/150‑1 (MQ=255)                                                                                                                                cTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTa                                                                                                             >  3:87094/1‑52 (MQ=255)                                                                                                                                cTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTa                                                                                                             <  4:87094/52‑1 (MQ=255)                                                                                                                                         gttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAAGCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGc  <  2:143546/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                            TACCGAACTTACCGAGGAAACGAGCAGAACCGCCGAACTGCGACAGGATCCTGTCTACGGCAGCTATCAGCATAAAGAACATCATGATGTACATGATGATTTCGTTAATTCCCATCGCCTTTACTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGC  >  NC_000913_3_pae_pgi/2567993‑2568278

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