New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	2539616 =	NA (NA)	5 (0.320)	5/242	1.4	NA	noncoding (10/36 nt)	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913_3_pae_pgi	2539630 =	NA (NA)					noncoding (24/36 nt)	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP175 (repetitive extragenic palindromic) element; contains 1 REP sequences

ATTGCCTTCCAGTTTTAACCACACTTCACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTTGTGCGAGAGCAAGTTCCTCATCGCGGGTT  >  NC_000913_3_pae_pgi/2539482‑2539756                                                                                                                                                     |                                                                                                                               aTTGCCTTCCAGTTTTAACCACACTTCACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCtt                                                                                                                               >  2:195245/1‑150 (MQ=255)     ccTTCCAGTTTTAACCACACTTCACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCa                                                                                                                           >  3:123186/1‑150 (MQ=255)        aacccgcgatgaggaacttgctctcgcacaaagcgcctgataggttgagtgaatgttaaacgcccggaggcgcttcccgcgatccgggctttttaatggcaaggtttgtaacctgtagacctgatgcGACGCTTGCGCGTCTTATCAGGt                                                                                                                        >  1:36400‑M1/128‑150 (MQ=255)                    cacaCTTCACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACa                                                                                                            >  3:103541/1‑150 (MQ=255)                           cACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTg                                                                                                     >  2:63022/1‑150 (MQ=255)                            aCTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGc                                                                                                    <  4:103541/150‑1 (MQ=255)                                  cacaaagcgcctgataggttgagtgaatgttaaacgcccggaggcgcttcccgcgatccgggctttttaatggcaaggtttgtaacctgtagacctgataaGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTaa                                                                                              >  4:37923‑M1/102‑150 (MQ=255)                                  cacaaagcgcctgataggttgagtgaatgttaaacgcccggaggcgcttcccgcgatccgggctttttaatggcaaggtttgtaacctgtagacctgataaGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTaa                                                                                              <  3:37923‑M1/49‑1 (MQ=255)                                                           ttCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCt                                                                     >  2:15926/1‑150 (MQ=255)                                                                cAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCggg                                                                >  1:184222/1‑150 (MQ=255)                                                                 agagGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGc                                                               <  1:63022/150‑1 (MQ=255)                                                                       gTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTaa                                                         <  3:120089/150‑1 (MQ=255)                                                                              cTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCAc                                                  <  1:195245/150‑1 (MQ=255)                                                                                         tCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCAtt                                                                                                >  3:55891/1‑93 (MQ=255)                                                                                         tCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCAtt                                                                                                >  3:55895/1‑93 (MQ=255)                                                                                         tCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCAtt                                                                                                <  4:55891/93‑1 (MQ=255)                                                                                         tCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCAtt                                                                                                <  4:55895/93‑1 (MQ=255)                                                                                          cTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGc                                                               >  1:21733/1‑125 (MQ=255)                                                                                          cTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGc                                                               <  2:21733/125‑1 (MQ=255)                                                                                           tAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAgg                                     <  1:15926/150‑1 (MQ=255)                                                                                            cgggctttttaatggcaaggtttgtaacctgtagacctgataaGACGCTTGCGCGTCTTATc                                                                                                                            >  1:69518‑M1/44‑62 (MQ=255)                                                                                            cgggctttttaatggcaaggtttgtaacctgtagacctgataaGACGCTTGCGCGTCTTATc                                                                                                                            <  2:69518‑M1/19‑1 (MQ=255)                                                                                             gtGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTAACTCAACCTATCAGgcg                                   >  2:97302/2‑150 (MQ=255)                                                                                                   tCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTtgt                             >  2:94924/1‑150 (MQ=255)                                                                                                    ttaatggcaaggtttgtaacctgtagacctgataagacgcgcaagcgtcTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTtgtg                            <  3:37923‑M2/101‑1 (MQ=255)                                                                                                    ttaatggcaaggtttgtaacctgtagacctgataagacgcgcaagcgtcTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTtgtg                            >  4:37923‑M2/50‑150 (MQ=255)                                                                                                      cGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCt                                                                                                                                <  2:201482/48‑1 (MQ=255)                                                                                                      cGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCt                                                                                                                                >  1:201482/1‑48 (MQ=255)                                                                                                                    aCGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTTGTGCGAGAGCAAGTTCCTc            <  4:123186/150‑1 (MQ=255)                                                                                                                            ttGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTTGTGCGAGAGCAAGTTCCTCATCGCggg    >  1:21371/1‑150 (MQ=255)                                                                                                                              acctgataagacgcgcaagcgtcGCATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTTGTGCGAGAGCAAGTTCCTCATCGCGGGtt  >  1:36400‑M2/24‑150 (MQ=255)                                                                                                                                cTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAAc                                                        >  3:122830/1‑94 (MQ=255)                                                                                                                                cTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAAc                                                        <  4:122830/94‑1 (MQ=255)                                                                                                                                  gataagacgcgcaagcgtcTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCg                                                                                      >  1:69518‑M2/20‑62 (MQ=255)                                                                                                                                  gataagacgcgcaagcgtcTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCg                                                                                      <  2:69518‑M2/43‑1 (MQ=255)                                                                                                                                                     |                                                                                                                               ATTGCCTTCCAGTTTTAACCACACTTCACTGCCGTTATCCGGCCCCATTCGCTGCAACTTCACCAGAGGCGTATTGCCTATTGTTTGTTCTAATGTACTCACGATCTCTATCCATACGTGGTGTTGCCTGATGCGACGCTTGCGCGTCTTATCAGGTCTACAGGTTACAAACCTTGCCATTAAAAAGCCCGGATCGCGGGAAGCGCCTCCGGGCGTTTAACATTCACTCAACCTATCAGGCGCTTTGTGCGAGAGCAAGTTCCTCATCGCGGGTT  >  NC_000913_3_pae_pgi/2539482‑2539756

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.