New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 4415221	NA (NA)	6 (0.390)	6/240	1.1	NA	noncoding (4/34 nt)	REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913_3_pae_pgi	= 4415251	NA (NA)					noncoding (34/34 nt)	REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP332 (repetitive extragenic palindromic) element; contains 1 REP sequences

GTTAGATACGCGCGGCGGCGTACGGTTGTCAGAGCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGCTGCTGGTCTTCGTACATGGTAATAATGCGGTACCATGACGCACCTTG  >  NC_000913_3_pae_pgi/4415076‑4415363                                                                                                                                                  |                                                                                                                                               gTTAGATACGCGCGGCGGCGTACGGTTGTCAGAGCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGgccg                                                                                                                                            <  1:111964‑M1/150‑5 (MQ=255)       tACGCGCGGCGGCGTACGGTTGTCAGAGCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAg                                                                                                                                      >  1:53155/1‑150 (MQ=255)                             tCAGAGCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCAt                                                                                                                >  4:61473/1‑150 (MQ=255)                                  gCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTc                                                                                                           <  1:85406/150‑1 (MQ=255)                                     gATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCAtt                                                                                                        <  1:148839/150‑1 (MQ=255)                                        ccAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGc                                                                                                     >  3:97296/1‑150 (MQ=255)                                            aaTGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTa                                                                                                 <  4:97296/150‑1 (MQ=255)                                             aTGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAg                                                                                                <  3:61473/150‑1 (MQ=255)                                               gATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGAt                                                                                              <  2:53155/150‑1 (MQ=255)                                                 tttATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGgccggatgcggcgcgagcgccttgtccggcctacaattttc                                                                                                       <  4:5736‑M1/139‑42 (MQ=255)                                                 tttATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGgccggatgcggcgcgagcgccttgtccggcctacaattttc                                                                                                       >  3:5736‑M1/1‑98 (MQ=255)                                                                            gtgtgtgtAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTAc                                                                 >  2:85704/1‑150 (MQ=255)                                                                                         tataCGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCa                                                    <  1:121034/150‑1 (MQ=255)                                                                                             cGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGgct                                                >  4:74949/1‑150 (MQ=255)                                                                                                   aTGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGctgctg                                            <  3:87683/148‑1 (MQ=255)                                                                                                   aTGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGctgctg                                            >  4:87683/1‑148 (MQ=255)                                                                                                                ttCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCc                                                                                                                 >  1:19857‑M2/1‑65 (MQ=255)                                                                                                                ttCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCc                                                                                                                 <  2:19857‑M2/66‑2 (MQ=255)                                                                                                                          tAAATGAAATATGTGAAAATTGTAGgccggatgcggcgcgagcgccttgtccggcctacaattttcacatatttcattta                                                                                         >  2:26814‑M1/1‑25 (MQ=255)                                                                                                                          tAAATGAAATATGTGAAAATTGTAGgccggatgcggcgcgagcgccttgtccggcctacaattttcacatatttcattta                                                                                         <  1:26814‑M1/80‑56 (MQ=255)                                                                                                                          tAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCctacaattttcacatatttcattta                                                                                         <  1:26814‑M2/80‑26 (MQ=255)                                                                                                                          tAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCctacaattttcacatatttcattta                                                                                         >  2:26814‑M2/1‑55 (MQ=255)                                                                                                                                       tgAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGCTGCTGGTCTTCGTACATGGTAATAATGCGGTACCATGACGCAc      <  1:85704/150‑1 (MQ=255)                                                                                                                                        gAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCctacaattttcacatatttcatttagttaatcgaaaccagcgtcgcatcagtcgtatacgcttacacacacactccccccgtcgcccgcagcaataaa                >  3:5736‑M2/1‑41 (MQ=255)                                                                                                                                        gAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCctacaattttcacatatttcatttagttaatcgaaaccagcgtcgcatcagtcgtatacgcttacacacacactccccccgtcgcccgcagcaataaa                <  4:5736‑M2/139‑99 (MQ=255)                                                                                                                                         aaaaTTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGCTGCTGGTCTTCGTACATGGTAATAATGCGGTACCATGACGCACCt    >  4:31777/1‑150 (MQ=255)                                                                                                                                           aaTTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGCTGCTGGTCTTCGTACATGGTAATAATGCGGTACCATGACGCACCTTg  <  3:74949/150‑1 (MQ=255)                                                                                                                                                  ggccggatgcggcgcgagcgccttgtccggcctacaattttcacatatttcatttagttaatcgaa                                                                               >  1:19857‑M1/1‑1 (MQ=255)                                                                                                                                                  ggccggatgcggcgcgagcgccttgtccggcctacaattttcacatatttcatttagttaatcgaa                                                                               <  2:19857‑M1/66‑66 (MQ=255)                                                                                                                                                  |                                                                                                                                               GTTAGATACGCGCGGCGGCGTACGGTTGTCAGAGCAGATCCAGAATGATTTATTGCTGCGGGCGACGGGGGGAGTGTGTGTGTAAGCGTATACGACTGATGCGACGCTGGTTTCGATTAACTAAATGAAATATGTGAAAATTGTAGGCCGGACAAGGCGCTCGCGCCGCATCCGGCATTGTTCATTTGCTGTAGATGACACTCATGCATACAGTATCGCCTGTACGCGCCAGTTATCAGGCTGCTGGTCTTCGTACATGGTAATAATGCGGTACCATGACGCACCTTG  >  NC_000913_3_pae_pgi/4415076‑4415363

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.