New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 4284640	NA (NA)	5 (0.210) +CTATTGCCGACCTGTAGGCCGGATAAGGCACTTGTGCCGCATCCGGCAATCAATGC	3/170	3.8	14.2%	intergenic (‑167/+33)	yjcH/acs	DUF485 family inner membrane protein/acetyl‑CoA synthetase
	?	NC_000913_3_pae_pgi	= 4459704	50 (1.260)					noncoding (30/84 nt)	REP338 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP338 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACAAACAGGGTGCAACGAGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTGCTTACCAGC  >  NC_000913_3_pae_pgi/4459557‑4459844                                                                                                                                                    |                                                                                                                                             aCAAACAGGGTGCAACGAGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTCCTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGa                                                                                                                                             <  1:507547/149‑1 (MQ=255)     aCAGGGTGCAACGAGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGCTAATCAATGCCTGATGCGACGCTGTGGCGTCTTCTCCGACCTg                                                                                                                                         >  2:637057/1‑149 (MQ=255)                cGAGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGACATATCAGACCCGGCGCCAGTGcc                                                                                                                              >  2:173701/1‑149 (MQ=39)                 gAGTGCCGGGGGCGTTGACGAGGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCa                                                                                                                             <  1:161885/149‑1 (MQ=255)                  aGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGACTTATCAGTCCGCAGGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCGCGAGCAATTGACaa                                                                                                                            >  2:273121/1‑149 (MQ=38)                       cGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTa                                                                                                                       >  2:175899/1‑149 (MQ=255)                       cGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTa                                                                                                                       >  1:363620/1‑149 (MQ=255)                         gggCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAgg                                                                                                                     >  2:442816/1‑149 (MQ=255)                           gCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGcc                                                                                                                   >  2:335771/1‑149 (MQ=255)                           gCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTAACAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGcc                                                                                                                   >  2:335784/1‑149 (MQ=255)                              gTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACGTGGAGCAATTGCCAACTGTAGGCCGGa                                                                                                                >  1:353371/1‑149 (MQ=255)                                  ccGATGTCGACAGGATAGTATCGATTATCACTCATTCTTTCGCTTGGCTTATCAGCCCGCGTGTAAGCTGGATCCGGACATACCTGCCTGGTGGGACGTTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAg                                                                                                            <  2:598388/148‑1 (MQ=255)                                  aCGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAg                                                                                                            <  2:502942/149‑1 (MQ=255)                                          gACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATCCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTCCCAAATGTAGCCCGGATAAGCCGtttcc                                                                                                    >  2:269104/1‑147 (MQ=255)                                             aGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTAcgcc                                                                                                 <  1:473765/149‑1 (MQ=255)                                             aGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTAcgcc                                                                                                 <  1:175899/149‑1 (MQ=255)                                                   gTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATcc                                                                                           >  2:518287/1‑149 (MQ=255)                                                      cTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATGCGGCGTAAACGCCTTATCCGGc                                                                                        >  1:613650/1‑149 (MQ=38)                                                         atgatAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAtt                                                                                     <  2:620392/149‑1 (MQ=255)                                                         atgatAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAtt                                                                                     >  1:488210/1‑149 (MQ=255)                                                          tgatAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAttt                                                                                    <  1:518717/149‑1 (MQ=255)                                                               aTTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTa                                                                               <  1:621721/149‑1 (MQ=255)                                                                ttCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTGGCTTAg                                                                              >  1:574799/1‑149 (MQ=255)                                                                  cATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCt                                                                            >  1:419053/1‑149 (MQ=255)                                                                   attattTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTc                                                                           >  1:405214/1‑149 (MQ=255)                                                                   attattTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTc                                                                           >  1:28835/1‑149 (MQ=255)                                                                      attTCGCCGGGCTTATCAGGCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCaga                                                                        <  2:550408/149‑1 (MQ=255)                                                                             cTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGa                                                                 >  1:692424/1‑149 (MQ=255)                                                                                  ttATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAAc                                                            <  1:146924/149‑1 (MQ=255)                                                                                         tCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCGTTTGCTTAGCTCAGAGTGCAGATTACCCGGTCTg                                                     >  1:605706/1‑149 (MQ=37)                                                                                         tCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTg                                                     >  2:125883/1‑149 (MQ=255)                                                                                         tCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTg                                                     >  2:606738/1‑149 (MQ=255)                                                                                         tCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGCTTACGCCGCATCCGGCATTTCCTTAGCTCAGAGCGAGACTTCACCTATCTg                                                     >  2:126178/1‑149 (MQ=25)                                                                                           cgcgTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGcc                                                   <  1:606738/149‑1 (MQ=255)                                                                                           cgcgTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGcc                                                   <  1:389788/149‑1 (MQ=255)                                                                                                    gCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTccc                                            >  2:112600/1‑147 (MQ=255)                                                                                                    gCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTccc                                            <  1:112600/147‑1 (MQ=255)                                                                                                         agccGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCGGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGt                                     <  1:173701/147‑1 (MQ=255)                                                                                                          tCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAAc                                                            >  2:64034/1‑125 (MQ=255)                                                                                                          tCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAAc                                                            <  1:64034/125‑1 (MQ=255)                                                                                                             ggTAATCAACGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTaa                                 <  1:233845/149‑1 (MQ=255)                                                                                                               tAATCAATGCCTGATGCGACGCTGTCGAGCCGAAGCATACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAAcg                               >  1:515299/1‑149 (MQ=38)                                                                                                                   cAACGCGTGATGCGATGCTGGCGAGTCTTATCAGTCCTGCAGCAATTGCCAAATGCAGGCCGGATAAGGCGTTTACGCCACGTCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGGCCCTTCCCCTAATGTTTATCgcggc                           <  2:567894/149‑1 (MQ=25)                                                                                                                            aTGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAActt                  <  1:669095/149‑1 (MQ=255)                                                                                                                                gACGCTGTGGCGGCTTATCAGGCCGGGAGCAATTGCCGAATGTAGGCCGGTTAAGGCGTTTACGCCGCTTCCGGCATTTGCTTAGCTCAGAGTGGAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACgtcttc              <  2:490622/149‑1 (MQ=255)                                                                                                                                   gCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTg           >  1:553953/1‑149 (MQ=255)                                                                                                                                   gCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTg           <  1:442816/149‑1 (MQ=255)                                                                                                                                         gcgTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGCTTAACGCGGCGCTTACCTTCTTCCTCCTTccc     >  1:295358/1‑149 (MQ=255)                                                                                                                                            tCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTGCTTACCAGc  <  2:28835/149‑1 (MQ=255)                                                                                                                                            tCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTGCTTACCAGc  <  2:101937/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                             ACAAACAGGGTGCAACGAGTGCCGGGGCCGTTGACGATGTCGACAGGATAGTACTGATGATAATTCATTATTTCGCCTGGCTTATCAGTCCGCGTGTAGGCTGCATCCGGTAATCAATGCCTGATGCGACGCTGTCGCGTCTTATCAGACCTGGAGCAATTGCCAAATGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATTTGCTTAGCTCAGAGTGAAGATTAACCTATCTGCCCATTCCCCAAATGTTTAACGCGGCGCTTAACTTCTTCCTGCTTACCAGC  >  NC_000913_3_pae_pgi/4459557‑4459844

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.