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

TCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGTATAGATTACCAGGCGCTGCCGGAGCACGAAAAACACATCTTTATCAGCAACCTG  >  CP009273/2340575‑2341096                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                                   tCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGCTTTGTAGGCCTGATCAGACGCGCCAGCGTCGCATCACGCACAAGATGAGGCGAAAAATGCCTTAACCGGCATTAAACTccc                                                                                                                                                                                                                                                          >  1:153571/1‑274 (MQ=255)       gCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTANGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGTCTTATCCGGCATTAAACTCCCAACAGGa                                                                                                                                                                                                                                                   <  1:532286/275‑1 (MQ=255)                       gATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCGCGGTTTGTAGGCATGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAAc                                                                                                                                                                                                                                                       <  1:422931/255‑1 (MQ=255)                                         gcATGTAAGTTCTGATATTGAGATGCCGGATGCGGCGTAAACGCCGTATCCGGCCTACGGCTCGGTTTGTAGGCGTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCa                                                                                                                                                                                                                                           <  1:140153/249‑1 (MQ=255)                                                      gttatTGGGATGGCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGATAAATGATCAg                                                                                                                                                                                                     <  1:718415/272‑1 (MQ=255)                                                                                              ccTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACGCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGc                                                                                                                                                            >  1:387358/1‑275 (MQ=255)                                                                                                        ggTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAAc                                                                                                                                                                                           >  1:141360/1‑234 (MQ=255)                                                                                                            tGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGAt                                                                                                                                                                                       <  2:141359/234‑1 (MQ=255)                                                                                                               aGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACACGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTAATGGCATATACCACCTTTTCACAGACGAAAAATAATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCAGTCAACGTTGCTCGCTACGATCAGCaaa                                                                                                                                           >  1:415154/1‑275 (MQ=255)                                                                                                                             gcgcCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTcac                                                                                                                                                                                                                      >  1:198312/1‑186 (MQ=255)                                                                                                                                 cAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGAc                                                                                                                                                                                                                  <  2:198310/186‑1 (MQ=255)                                                                                                                                                    gggTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTa                                                                                                                                                                                                                                                                 >  1:420185/1‑120 (MQ=255)                                                                                                                                                        gCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACt                                                                                                                                                                                                                                                             <  2:420178/120‑1 (MQ=255)                                                                                                                                                         ccGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACAACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGACTCGCTACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCCGCTCtctt                                                                                                 >  1:280820/1‑275 (MQ=255)                                                                                                                                                                   cGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATATTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCg                                                                                       >  1:426636/1‑275 (MQ=255)                                                                                                                                                                                    gCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTcac                                                                                                                                                                                                                      >  1:227175/1‑131 (MQ=255)                                                                                                                                                                                     ccTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATAAACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCttt                                                                                                                                                                                >  2:365375/1‑168 (MQ=255)                                                                                                                                                                                     ccTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACCCCCAACAGGACACACTCATGGCat                                                                                                                                                                                                                                     >  2:400399/1‑115 (MQ=255)                                                                                                                                                                                        aCGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGAc                                                                                                                                                                                                                  <  2:227173/131‑1 (MQ=255)                                                                                                                                                                                         cGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATac                                                                                                                                                                                                                                 <  1:400406/115‑1 (MQ=255)                                                                                                                                                                                         cGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATAAACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTc                                                                                                                                                                            <  1:365382/168‑1 (MQ=255)                                                                                                                                                                                             atgcgacgctggcgcgtcttatcaggcctacaaaccgagccgtaggccggataaggcgtttacgccgcatccggcATTAAACTCCCAACAGGACACACTCAt                                                                                                                                                                                                                                          >  1:72056‑M2/76‑102 (MQ=255)                                                                                                                                                                                                 gacgctggcgcgtcttatcaggcctacaaaccgagccgtaggccggataaggcgtttacgccgcatccggcATTAAACTCCCAACAGGACACACTCATGGCa                                                                                                                                                                                                                                      <  2:72055‑M2/31‑1 (MQ=255)                                                                                                                                                                                                    tGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATAACACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGta                                                       <  1:454340/274‑1 (MQ=255)                                                                                                                                                                                                              aTAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAgg                                                                                                                                                                                                                                                    >  1:410115/1‑75 (MQ=255)                                                                                                                                                                                                                  gACGCGCCAGCGTCGCATCAGGNACAGGATGNGGCGTAAAATGCGTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATCTACGAAAAGCTGATCGAAAAGCAGctct                                                                                                    <  1:482674/215‑1 (MQ=255)                                                                                                                                                                                                                  gACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGacac                                                                                                                                                                                                                                                <  2:410108/75‑1 (MQ=255)                                                                                                                                                                                                                                cgagccgtaggccggataaggcgtttacgccgcatccggcATTAAACTcc                                                                                                                                                                                                                                                           >  1:334022‑M2/41‑50 (MQ=255)                                                                                                                                                                                                                                    ccgtaggccggataaggcgtttacgccgcatccggcATTAAACTCCCAAc                                                                                                                                                                                                                                                       <  2:334016‑M2/14‑1 (MQ=255)                                                                                                                                                                                                                                           aGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAANTATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGTATAGATTACCAGGCGCTGCCGGAGCACGAAAAACACATCtt               >  1:616925/1‑275 (MQ=255)                                                                                                                                                                                                                                                       aaaaTGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGTATAGATTACCAGGCGCTGCCGGAGCACGAAAAACACATCTTTATCAGCAACCt   >  1:430516/1‑275 (MQ=255)                                                                                                                                                                                                                                                        aaaTGCCTAATCAGGAATTAAACTCCCAACACGACACACTCATGGCATATACCACCGTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGATACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGTATAGATTACCAGGCGCTGCCGGAGCACGAAAAACACATCTTTATCAGCAACCTg  <  2:616912/275‑1 (MQ=255)                                                                                                                                                                                                                                                              cTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCaaa                                                                                                                                                                                               >  1:7252/1‑80 (MQ=255)                                                                                                                                                                                                                                                                  tccggcATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAAc                                                                                                                                                                                           <  2:7252‑M2/74‑1 (MQ=255)                                                                                                                                                                                                                                                                     ggcATTAAACTCCAAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAAc                                                                                                                                                                                           >  2:304605‑M2/4‑77 (MQ=255)                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                                   TCTGGTGCCGTCAATCCAGGACGATGGCTGCGAAAGCGGCGCATGTAAGATCTGATATTGAGATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACGGCTCGGTTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCTCCGGGTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGCTCGGATTTGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCACAGGATGCGGCGTAAAATGCCTTATCCGGCATTAAACTCCCAACAGGACACACTCATGGCATATACCACCTTTTCACAGACGAAAAATGATCAGCTCAAAGAACCGATGTTCTTTGGTCAGCCGGTCAACGTGGCTCGCTACGATCAGCAAAAATATGACATCTTCGAAAAGCTGATCGAAAAGCAGCTCTCTTTCTTCTGGCGTCCGGAAGAAGTTGACGTCTCCCGCGACCGTATAGATTACCAGGCGCTGCCGGAGCACGAAAAACACATCTTTATCAGCAACCTG  >  CP009273/2340575‑2341096

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 34 ≤ 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.