New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	2340639 =	NA (NA)	4 (0.110)	4/292	NT	13.1%	noncoding (1/203 nt)	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences
	?	CP009273	2340838 =	27 (0.700)					noncoding (200/203 nt)	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences	REP164 (repetitive extragenic palindromic) element; contains 5 REP sequences

ATCTGCAACTGGTGGGTATCATGCAGAAATTTATCGATCAGTCGATCTCTGCCAACACCAACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAG  >  CP009273/2340376‑2340901                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                                       aTCTGCAACTGGTGGGTATCATGCAGAAATTTATCGATCAGTCGATCTCTGCCAACACCAACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACCCACAAGACGATCTGGTGCCTTCAATCCAGGACGATGGCTGCGCAAGCGGCGCATGTAAGATCTGATATTGAGATGcagcattcga                                                                                                                                                                                                                                                              >  2:82115/1‑265 (MQ=255)                   tccggCAGAAATTGATCGCACAGTCGAGCTCTGCCAACTCCAGCTACGATCCGTCCCGCTGTCCGGTAGGAAAAGTGCCGAGGCAGAAGTTGCGGAAAGACCTGATCACCGCCAACAAATTCGGGGGAAAAACACTAGATTAGCAGAAAAG‑CCGGGACGGCGCTGAAGACGCACAAGACGATCGGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGAATGTAAGATCTGATATTGAGATGCCGGATAAGGCGTTCACGCGGCATCCgg                                                                                                                                                                                                                                            <  2:204791/270‑1 (MQ=255)                           aaaTTTATCGATCAGTCGATCTCTGCGAATACCAACTACGATCCGTCAAGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAGGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCACGTAAGATCTGAAATTGAGAGCACGGATGCGGCGGAAACGCCTGATCCGTCCTAGGGcg                                                                                                                                                                                                                                   >  2:309063/1‑274 (MQ=255)                            aaTTTATTGATCAGTCGATCTCTGCCAAACACAACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCt                                                                                                                                                                                                                                   <  1:160129/274‑1 (MQ=255)                              tttATCGATCAGTCGATCTCTGCCAACACCAACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCg                                                                                                                                                                                                                                 <  1:82116/274‑1 (MQ=255)                                  tCGTTCAGTCGTTCTCTGCCACCACCTACTACGATCCGTCACGCTTCCAGTAAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAGGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTg                                                                                                                                                                                                                            <  1:309068/275‑1 (MQ=255)                                          tctagcgcggCCAACACCAACTACGTTCCGTCACGCTTCCCGACAGGAAAAGTGCCGATGCAGCAGTTGCGGAAAGACCTGATCACCGCCTACAAATTCGGGGTCAAAACTCTGTATTATCAGAACAC‑CCGTGATGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGc                                                                                                                                                                                                                       <  1:17956/263‑1 (MQ=255)                                                                                    tCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACGA‑CAGTGACAGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGGATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTg                                                                                                                                                                                                                            <  1:106682/225‑1 (MQ=255)                                                                                                  gATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAc                                                                                                                                                                                                                                       >  1:428436/1‑200 (MQ=255)                                                                                                      cagcagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCt                                                                                                                                                                                                                                   <  2:428429/200‑1 (MQ=255)                                                                                                         aagTTGACGAAAACCCTTCTCAAGGCCAGCAGATTCGAGGTCAAAACACAGTATAATCAG‑ACACACCGGGACGGCGCTGCAGCCGCAAAAGCCGAGATGGTGCCGTCAAGCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCGGATGTTGAGATGCCGGAGGCGGCGTAAACGCATTATCCGGCGTAAGGGTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATc                                                                                                                                                        <  2:322440/271‑1 (MQ=255)                                                                                                            ttGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCCGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCt                                                                                                                                                  >  1:67912/1‑275 (MQ=255)                                                                                                                                                           gTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTaa                                                                                                                                                                                                                                                         >  1:38535/1‑125 (MQ=255)                                                                                                                                                               tatCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGc                                                                                                                                                                                                                                                     <  2:38534/125‑1 (MQ=255)                                                                                                                                                                    gAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTAc                                                                                                                                                                                                                                       >  2:474277/1‑134 (MQ=255)                                                                                                                                                                    gAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCCCAACAGGCACAGGa                                                                                           >  1:264713/1‑274 (MQ=255)                                                                                                                                                                      acac‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCt                                                                                                                                                                                                                                                   >  1:556292/1‑120 (MQ=255)                                                                                                                                                                      acac‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCACCAGCGTCGCATCCGGAACAGGa                                                                                           >  1:649948/1‑272 (MQ=255)                                                                                                                                                                        ac‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCt                                                                                                                                                                                                                                   <  1:474285/134‑1 (MQ=255)                                                                                                                                                                           ccGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCAGGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATc                                                                                                                                                                                                                                               <  2:556280/120‑1 (MQ=255)                                                                                                                                                                                         aaGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGc                                                                                                                                                                      >  2:195562/1‑179 (MQ=255)                                                                                                                                                                                             cGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGa                                                                                                                                                                  <  1:195564/179‑1 (MQ=255)                                                                                                                                                                                               gttctttgagctgatcatttttcgtctgtgaaaaggtggtatatgccatgagtgtgtcctgtttggagtttaatGcc                                                                                                                                                                                                                                                                      >  2:304605‑M1/75‑77 (MQ=255)                                                                                                                                                                                               gttctttgagctgatcatttttcgtctgtgaaaaggtggtatatgccatgagtgtgtcctgttgggagtttaatGCCGGa                                                                                                                                                                                                                                                                   <  2:7252‑M1/6‑1 (MQ=255)                                                                                                                                                                                                         tCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGCTTTGTAGGCCTGATCAGACGCGCCAGCGTCGCATCACGCACAAGATGAGGCGAAAAATGCCTTAACCGGCATTAAACTccc                                                       >  1:153571/1‑274 (MQ=255)                                                                                                                                                                                                               gCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTANGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGTCTTATCCGGCATTAAACTCCCAACAGGa                                                <  1:532286/275‑1 (MQ=255)                                                                                                                                                                                                                            gACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGa                                                                                                                                                                            >  2:720257/1‑138 (MQ=255)                                                                                                                                                                                                                               gATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCGCGGTTTGTAGGCATGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAc                                                    <  1:422931/255‑1 (MQ=255)                                                                                                                                                                                                                                aTGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGAGCCGGATGCa                                                                                                                                                                        <  1:720271/138‑1 (MQ=255)                                                                                                                                                                                                                                          tgccatgagtgtgtcctgttgggagtttaatGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTc                                                                                                                                                                                                  <  2:72055‑M1/71‑1 (MQ=255)                                                                                                                                                                                                                                              atgagtgtgtcctgttgggagtttaatGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCAt                                                                                                                                                                                              >  1:72056‑M1/28‑102 (MQ=255)                                                                                                                                                                                                                                               gcgcATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGAt                                                                                                                                                                           >  2:610885/1‑120 (MQ=255)                                                                                                                                                                                                                                                 gcATGTAAGTTCTGATATTGAGATGCCGGATGCGGCGTAAACGCCGTATCCGGCCTACGGCTCGGTTTGTAGGCGTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCa                                        <  1:140153/249‑1 (MQ=255)                                                                                                                                                                                                                                                   aTGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAg                                                                                                                                                                       <  1:610898/120‑1 (MQ=255)                                                                                                                                                                                                                                                           gttgggagtttaatGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACgg                                                                                                                                                                                                                                     <  2:334016‑M1/36‑1 (MQ=255)                                                                                                                                                                                                                                                              gttatTGGGATGGCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGATAAATGATCAg  <  1:718415/272‑1 (MQ=255)                                                                                                                                                                                                                                                               ggagtttaatGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCg                                                                                                                                                                                                                                 >  1:334022‑M1/11‑50 (MQ=255)                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                                       ATCTGCAACTGGTGGGTATCATGCAGAAATTTATCGATCAGTCGATCTCTGCCAACACCAACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAC‑CCGTGACGGCGCTGAAGACGCACAAGACGATCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAG  >  CP009273/2340376‑2340901

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ 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.