New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_KO_pgi	= 4008430	NA (NA)	9 (0.240)	5/266	4.6	NA	noncoding (34/34 nt)	REP289 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP289 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913_3_KO_pgi	= 4294458	NA (NA)					noncoding (190/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites
Rejected: Coverage evenness skew score above cutoff.

CGTGGTTATCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAACCGATCATCA  >  NC_000913_3_KO_pgi/4008288‑4008578                                                                                                                                               |                                                                                                                                                     cGTGGTTATCAACGTCTGGCGAAGGGGATTGATGATTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCAAGACGCGTCTTCAGAGTAGGTTGGATAAGCCATTTACGCCACATCCGAAattatt                                                                                                                                                >  2:413831/1‑149 (MQ=255)         tCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGc                                                                                                                                        >  1:639160/1‑149 (MQ=255)         tCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGc                                                                                                                                        <  1:496517/149‑1 (MQ=255)         tCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGc                                                                                                                                        <  1:420392/149‑1 (MQ=255)         tCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGc                                                                                                                                        <  1:420001/149‑1 (MQ=255)          taaCGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCa                                                                                                                                       <  2:160669/148‑1 (MQ=255)             cGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGc                                                                                                                                    <  1:163466/149‑1 (MQ=255)                          ggATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGcga                                                                                                                       >  1:272761/1‑147 (MQ=255)                              tGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTAACGCATGCATGGCCGATGCTAACaa                                                                                                                   >  1:451699/1‑148 (MQ=255)                               gATTGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAgc                                                                                                                  <  2:37073/149‑1 (MQ=255)                                aTGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAgcg                                                                                                                 >  2:592762/1‑149 (MQ=255)                                aTGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTAAGCCGCATACAACATTTATTTTCACGCACACATCGCCGCTGCTAACaccc                                                                                                                 >  2:309978/1‑146 (MQ=255)                                 tGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAAGAgcgc                                                                                                                >  1:50667/1‑149 (MQ=255)                                 tGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAgcgc                                                                                                                >  1:535760/1‑149 (MQ=255)                                  ggTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTACTTCGCACGCATGCCTCGCCGATGCTAACAGCGCt                                                                                                               <  1:681293/149‑1 (MQ=255)                                  ggTTTTGCCGGGGCGTTAGTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCt                                                                                                               <  1:264613/149‑1 (MQ=255)                                         ccGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCccacca                                                                                                        <  1:346344/149‑1 (MQ=255)                                             ggCGTTATTTGCCGGATTTGGCCTTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTAGATGGTGGGGAAAGCGCTCCCACcatcat                                                                                                    >  2:656205/1‑149 (MQ=255)                                                gTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGAATCCGACATTCAATAGCACTCAAGCCTCGCCGATGCTAACAGCGATCCCACCAGCATaaa                                                                                                 >  1:400741/1‑149 (MQ=255)                                                       gCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAg                                                                                          <  1:462763/149‑1 (MQ=255)                                                       gCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAg                                                                                          <  1:208966/149‑1 (MQ=255)                                                        cgggATTTGGAAGTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTGCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGc                                                                                         <  1:607387/147‑1 (MQ=255)                                                        ccGGATTTGGCGTTCATTTGATTATTTCGCGGTGATTGCAGAAACGTCTTCAGATTACCTCGGATAAGGCGTTTACGCCGCATCCAACATTATTTTTTACACCAGCCTCGACGCTGCGAACCGCGCTCCCACCAGCATACACAACGatc                                                                                         >  2:50905/1‑147 (MQ=255)                                                        ccGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACa                                                                                                                    >  1:502826/1‑122 (MQ=255)                                                        ccGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACa                                                                                                                    <  2:502826/122‑1 (MQ=255)                                                        ccGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGc                                                                                         <  2:639160/149‑1 (MQ=255)                                                         cGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGcc                                                                                        >  1:6892/1‑149 (MQ=255)                                                            aTTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCTGAGTAAGTCGTATAAGGCGTTTCCGCCGCATCCGACATTATTTTTCCAGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACACCAAACCGaa                                                                                     >  2:639500/1‑149 (MQ=255)                                                                ggCATTCATTTGATTATTTCGCGGTGATGCCCGATGCGTCGTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATc                                                                                 <  2:145442/149‑1 (MQ=255)                                                                   attcattTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCCTCAACCACGAGCCGAAAATCTTa                                                                              >  2:336551/1‑149 (MQ=255)                                                                   attcattTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTa                                                                              >  1:409352/1‑149 (MQ=255)                                                                          tGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATc                                                                                 >  1:368073/1‑139 (MQ=255)                                                                          tGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATGTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATc                                                                                 <  2:368073/139‑1 (MQ=255)                                                                              tattTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAACTCTTGTTTATCTCCtt                                                                   <  2:6892/149‑1 (MQ=255)                                                                                       gTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCtt                                                          <  2:409352/149‑1 (MQ=255)                                                                                         gATGCCAGACGCGTCGTCAGAGTAAGTCGGATAAGGCGGTTACGCCGCATCCGACATTATTTTTCACGCATGCCGCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTg                                                        <  1:656205/149‑1 (MQ=255)                                                                                          aTGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATCCAGCGCCTTCATCTGCTTTgg                                                       >  2:445536/1‑149 (MQ=255)                                                                                              cAGACGCGTCTTCAGAGTAAGTCGGATAAGGCCTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCt                                                   <  1:537224/149‑1 (MQ=255)                                                                                                          cAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATaga                                       <  1:139033/149‑1 (MQ=255)                                                                                                            gagTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATGTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGc                                     >  1:340735/1‑149 (MQ=255)                                                                                                                      gATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGa                           <  2:535760/149‑1 (MQ=255)                                                                                                                                    gccgcATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGCGTGGGGTa             >  1:361745/1‑149 (MQ=255)                                                                                                                                      cgcATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAAc           <  1:397417/149‑1 (MQ=255)                                                                                                                                      cgcATCCGACATTATTGTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAAc           <  2:451699/149‑1 (MQ=255)                                                                                                                                           ccGACATTATGTTTCACGCAGGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAACCGatc      <  2:59895/149‑1 (MQ=255)                                                                                                                                             gACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAACCGatcat    >  1:585110/1‑149 (MQ=255)                                                                                                                                               cATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAATAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAACCGAtcatca  <  1:592762/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                     CGTGGTTATCAACGTCTGGCGAAGTGGATTGATGGTTTTGCCGGGGCGTTATTTGCCGGATTTGGCATTCATTTGATTATTTCGCGGTGATGCCAGACGCGTCTTCAGAGTAAGTCGGATAAGGCGTTTACGCCGCATCCGACATTATTTTTCACGCATGCCTCGCCGATGCTAACAGCGCTCCCACCAGCATAAACAACGAGCCGAAAATCTTATTCAGCGCCTTCATCTGCTTTGGTCCTTTAATCCATAGAGCAATCCGTTGAGCAAGGGTGGCGTAACCGATCATCA  >  NC_000913_3_KO_pgi/4008288‑4008578

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.