New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	2412629 =	37 (0.940)	5 (0.140)	5/260	4.2	12.2%	intergenic (‑35/+48)	yfbU/yfbV	UPF0304 family protein/UPF0208 family inner membrane protein
	?	NC_000913_3_pae_tpiA	2412656 =	38 (1.040)					intergenic (‑62/+21)	yfbU/yfbV	UPF0304 family protein/UPF0208 family inner membrane protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTAACGTTCAGCATTTGCCGGATCGAGCATAGTCATCATCTTGTACTGATTAGACAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTCCAGACTCCTGCAATT  >  NC_000913_3_pae_tpiA/2412508‑2412798                                                                                                                                                     |                                                                                                                                               gTAACGTTCAGCATTTGCCGGATCGAGCATAGTCATCATCTTGTACGGATTAGACAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCCCTCTACTACGGTGAAAAAAAAGAAACCTGAGTATGACTTCTTTta                                                                                                                                                >  1:1641/1‑149 (MQ=255)            gtagtGCCGGATCGATCATAGTTATCATCTTGTACTTATTAGACAAAATAAGACGACGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATc                                                                                                                                     <  1:127482/145‑1 (MQ=255)                           gCATAGTCATCATCTTGTACTGATTAGACAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTATTCAGGGGTCAATTACaa                                                                                                                      >  1:244170/1‑149 (MQ=255)                                 tcatcaTCTTGTACTGAATAAACAAAAAAAGGCGTTGCGCGATGAGCAGAACCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAatcatc                                                                                                                <  2:323172/149‑1 (MQ=255)                                            tACTGATTAGACAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTGTTGTATATGCGCAACAAGGGGTCAATTACAAATCATCAAGGAAAGttt                                                                                                     >  1:617800/1‑149 (MQ=255)                                                gagtAGACAAAATAAGACGTTGCGGGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATc                                                                                                 <  2:261443/146‑1 (MQ=255)                                                      aCAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCTgttg                                                                                           >  2:504522/1‑149 (MQ=255)                                                         aaaTAAGTCGTTTGGCGTTGGTGATTTTCGTTGTTGACTGCTGTAGCACTTTACTCCGGTGTAAAAATAGAAGGCTTCGTATGCCTTCTTTTATATGCGTGCTCAGTGGTTAATTACAGCTCCTCTAGGAAAGTTTTATCCAGTTGttt                                                                                        <  2:509875/149‑1 (MQ=255)                                                           aTAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGATTTATCCAATTTTTTGa                                                                                      >  1:179485/1‑149 (MQ=255)                                                            tAAGAGGTTGCGCGTTGGTTATTTCCATGGTTGACTTCTGTATCCATCAACTACGGTGAAAAAAAAGAAGGCTGAGTATGCATTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGaa                                                                                     <  2:25615/149‑1 (MQ=255)                                                             aaGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAg                                                                                    <  1:95046/149‑1 (MQ=255)                                                                   ttGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGgcgcgc                                                                              >  1:343519/1‑149 (MQ=255)                                                                              tCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTc                                                                   >  1:435220/1‑149 (MQ=255)                                                                                aTTTCCATTGTTGACTCCTGTATCCCTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTAGATGCGTAATCAGGGGTCAATTATAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAg                                                                 <  1:644112/149‑1 (MQ=255)                                                                                    ccATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTaa                                                             <  2:385990/149‑1 (MQ=255)                                                                                     cATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAAt                                                            >  2:505244/1‑149 (MQ=255)                                                                                          ttgACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTg                                                       >  2:686562/1‑149 (MQ=255)                                                                                               tCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAAt                                                  >  1:83312/1‑149 (MQ=255)                                                                                                ccTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCaa                                                                                                              <  2:553173/88‑1 (MQ=255)                                                                                                ccTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCaa                                                                                                              >  1:553173/1‑88 (MQ=255)                                                                                                  tGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAg                                                                                    >  1:33805/1‑112 (MQ=255)                                                                                                  tGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAg                                                                                    <  2:33805/112‑1 (MQ=255)                                                                                                      acACGCTCCTACGATGAAAAAAAAGAAGGCTAAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTTTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCtt                                           <  1:78571/148‑1 (MQ=255)                                                                                                        aCTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGGCTGCTAATCAGGCTTGc                                         >  1:679628/1‑149 (MQ=255)                                                                                                        aCTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGACTGCTAATCAGGCTTGc                                         >  1:679787/1‑149 (MQ=255)                                                                                                            tactacGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTc                                     <  1:570048/149‑1 (MQ=255)                                                                                                               tacGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAAc                                  >  2:31293/1‑149 (MQ=255)                                                                                                                aaggTGAAAAAAAAGAAGGCTGAGGATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACg                                 <  2:682776/147‑1 (MQ=255)                                                                                                                  ggTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAg                                                                                                                                   <  1:575773/49‑1 (MQ=255)                                                                                                                  ggTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAg                                                                                                                                   >  2:575773/1‑49 (MQ=255)                                                                                                                        aaaaaaGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCaa                         >  1:606525/1‑149 (MQ=255)                                                                                                                        aaaaaaGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCaa                         <  2:83312/149‑1 (MQ=255)                                                                                                                            aagaagGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACAcc                     >  1:580335/1‑149 (MQ=255)                                                                                                                                agGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGCAGCAATGACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTTAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTc                 >  2:119094/1‑149 (MQ=255)                                                                                                                                 ggCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTcc                >  2:459857/1‑149 (MQ=255)                                                                                                                                  gCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTc                 <  2:24701/147‑1 (MQ=255)                                                                                                                                  gCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTc                 >  1:24701/1‑147 (MQ=255)                                                                                                                                        tATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTCCAGACTcc         <  2:257961/149‑1 (MQ=255)                                                                                                                                         aggCCTTCTTTTATATGCGTAATCAGGGGTCAAGTACAAATCATCAAGGAAAGTTGTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTCCAGACTCCt        <  1:71266/147‑1 (MQ=255)                                                                                                                                             cttcttTTATATGCATAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGTCAACAACTGTCCAGGATCCTGCaa    >  2:320859/1‑149 (MQ=255)                                                                                                                                               tcttTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGATGCCAACACCTGTCCAGACTCCTGCACtt  >  1:333374/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                               GTAACGTTCAGCATTTGCCGGATCGAGCATAGTCATCATCTTGTACTGATTAGACAAAATAAGACGTTGCGCGTTGGTCATTTCCATTGTTGACTCCTGTATCACTCTACTACGGTGAAAAAAAAGAAGGCTGAGTATGCCTTCTTTTATATGCGTAATCAGGGGTCAATTACAAATCATCAAGGAAAGTTTTATCCAGTTGTTTGAAGGCGCGCTTAAGCGTGTCAGCTAATGCCTGGTAATCAGGCTTGCCTTCAACGGGTGCCAACACCTGTCCAGACTCCTGCAATT  >  NC_000913_3_pae_tpiA/2412508‑2412798

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.