New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_KO_pgi	111477 =	NA (NA)	7 (0.200)	6/268	3.8	15.6%	noncoding (48/200 nt)	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site
	?	NC_000913_3_KO_pgi	111509 =	38 (1.100)					noncoding (80/200 nt)	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGGTCGGTCTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTG  >  NC_000913_3_KO_pgi/111363‑111654                                                                                                                                                   |                                                                                                                                                  tGGTCGGTCTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACACTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTa                                                                                                                                                 >  1:456208/1‑149 (MQ=255)    tcggtcTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAg                                                                                                                                              <  2:439265/149‑1 (MQ=255)     cggtcTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAgg                                                                                                                                             <  1:557615/149‑1 (MQ=255)       gtcTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCGTGATGTGACGCTGGCGCGTCTTATCCGGCCTAAAgggg                                                                                                                                           >  1:386976/1‑148 (MQ=255)           tAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTc                                                                                                                                       >  1:631726/1‑149 (MQ=255)              tGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTaa                                                                                                                                    <  2:253200/149‑1 (MQ=255)                ccGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACt                                                                                                                                  >  1:312428/1‑149 (MQ=255)                  gatgatTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAgg                                                                                                                                             >  2:555507/1‑136 (MQ=255)                  gatgatTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAgg                                                                                                                                             <  1:555507/136‑1 (MQ=255)                  gatgatTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCa                                                                                                                                >  2:13442/1‑149 (MQ=255)                         ttCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATaa                                                                                                                         <  1:13442/149‑1 (MQ=255)                           ccGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAAt                                                                                                                       <  2:631726/149‑1 (MQ=255)                            cGCCAGCCAGTGAACGGGGGATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTAGCCGCATCCGACATTCGCACACGATGCCTCATGCGACGCTGGCGACTCTTATGAGGCCTAAAGGGATTTCTAACTCATTGTTaaact                                                                                                                      >  2:592262/1‑147 (MQ=255)                             gccagccaATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTCATGTGATTTCTAACTCATAGTTAAAttt                                                                                                                     >  1:176416/1‑149 (MQ=38)                                   caATAAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGttttt                                                                                                               <  1:209060/149‑1 (MQ=255)                                    aaTGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTg                                                                                                              <  2:312428/149‑1 (MQ=255)                                          ccGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCCTATCAGGCCCAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTTTAgcgc                                                                                                        >  2:106326/1‑146 (MQ=255)                                                 ttGCGAAGGTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAg                                                                                                 <  2:503205/149‑1 (MQ=255)                                                        gCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTTGCACACGATGCCTGGTGCGACGCTGGCGCCTCTTAACCGGCCTCAAGGGCTTTATCACCAATAGATCACTTCTTTTTTGCAGGGCGGTTAACGccgttg                                                                                          >  2:579504/1‑144 (MQ=16)                                                                          cAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTg                                                                        <  1:481410/149‑1 (MQ=255)                                                                            gATAATGCGTGTTCGTCGCATCCGACATTCGCACACGCTGCCTGATGCGACGCTGGCGCGTCTTATTAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGca                                                                      <  2:96948/149‑1 (MQ=39)                                                                            gATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCAGCCGACATTTGca                                                                      >  1:405495/1‑149 (MQ=255)                                                                             aTAAGGCGGTGTCGCCGCATCCGACGTTAGCACAGGAGGCCTGGTGCGACGCTGGCGCGTCGTAACAGGCCTAGGGAGATTTCTAACTCATTGATAAATTTGTTTTTGTCTGTCGCATAAGGCGTTCCCGCCCCCTCCGACCGTTGcac                                                                     >  2:498086/1‑149 (MQ=255)                                                                               aaGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACaa                                                                   <  2:567481/149‑1 (MQ=255)                                                                                aGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGa                                                                              <  1:326503/137‑1 (MQ=255)                                                                                aGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGa                                                                              >  2:326503/1‑137 (MQ=255)                                                                                     ttttCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGtt                                                                                            >  1:534198/1‑118 (MQ=255)                                                                                     ttttCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGtt                                                                                            <  2:534198/118‑1 (MQ=255)                                                                                     ttttCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGcc                                                             >  2:273235/1‑149 (MQ=255)                                                                                                   gACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTACAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCGTCCGACATTTGCACAAGCTGCCTGATGCGTCGCTGt                                               >  1:98799/1‑149 (MQ=255)                                                                                                              acGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCATGATGCGACGCTGTCCGCGTCTTAt                                    >  1:402401/1‑149 (MQ=255)                                                                                                               cGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACTCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATc                                   <  1:423653/149‑1 (MQ=255)                                                                                                                 aTGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAg                                 <  2:348072/149‑1 (MQ=255)                                                                                                                         tGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGt                         <  1:105347/149‑1 (MQ=255)                                                                                                                             aCGCTGGCGCATCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCAACGCTGTCCGCGTCTTATCAGGCCTACGTGCgg                     <  2:303729/149‑1 (MQ=255)                                                                                                                                 tGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATc                 <  2:45112/149‑1 (MQ=255)                                                                                                                                  ccagcgTCGCATCAGGCCTAAAGGGCTTTCTAACTCATTGATAAATTTGTTTTTGTCGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCa                <  1:411397/146‑1 (MQ=37)                                                                                                                                    cgcgTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGa              <  1:518225/149‑1 (MQ=255)                                                                                                                                    agcgTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGa              <  2:203866/148‑1 (MQ=255)                                                                                                                                            aTCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCCAACACATGTc      >  2:80756/1‑149 (MQ=255)                                                                                                                                                ggCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTg  <  2:380340/149‑1 (MQ=255)                                                                                                                                                   cTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAgg                                >  1:14688/1‑116 (MQ=255)                                                                                                                                                   cTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAgg                                <  2:14688/116‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                  TGGTCGGTCTTAATGCCGATGATTTTCCGCCAGCCAATGAACCGGTAATTGCGAAGCTTAAACGTCTGTAGGTCAGATAAGGCGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTG  >  NC_000913_3_KO_pgi/111363‑111654

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