New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3804946 =	22 (0.760)	4 (0.140)	4/278	3.7	16.2%	coding (171/936 nt)	waaS	lipopolysaccharide rhamnose:KdoIII transferase; lipopolysaccharide core biosynthesis protein
	?	NC_000913_3_pae_tpiA	3804980 =	20 (0.710)					coding (137/936 nt)	waaS	lipopolysaccharide rhamnose:KdoIII transferase; lipopolysaccharide core biosynthesis protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTTATAAAATAAATAGTCATAATAAAGTT  >  NC_000913_3_pae_tpiA/3804832‑3805125                                                                                                                                                     |                                                                                                                                                   cAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTatccatcc                                                                                                                                                    <  2:151735/149‑1 (MQ=255)     aCTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTAt                                                                                                                                                >  2:97182/1‑149 (MQ=255)                   aaTATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATAtttttt                                                                                                                                  >  1:165679/1‑149 (MQ=255)                    atatTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATAttttttt                                                                                                                                 <  2:402033/149‑1 (MQ=255)                                       tATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTTATATTATTGAGGTAATGCTTGATGAATAATCTCCCCAGCCATGCATTATCCATCCCTCTTTTTGATATTTTTTTATTAATTCACTTATAtttt                                                                                                              >  2:282456/1‑149 (MQ=255)                                                cTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGggtt                                                                                                     >  1:483940/1‑149 (MQ=255)                                                 tttATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGACATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGttttg                                                                                                    >  2:405231/1‑149 (MQ=255)                                                                    ttAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGTTTTTTTTATATTTTTTATCTTGTa                                                                                 >  2:105120/1‑149 (MQ=255)                                                                         gATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCAATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTATTTGGTGTTATTATATTTTTTATCTTTTAC‑tttt                                                                           >  2:405477/1‑149 (MQ=255)                                                                                     attttttttAATATCATTGAAGTAAGGCTTGATGAATACTCTCCCCAGCCATTCATTATCTATCCCTATTTTTGTTATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACt                                                               <  2:359287/146‑1 (MQ=255)                                                                                              aaaatCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAGTCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTACTTTTTTTTTCAGGTACTGAATCAtt                                                       <  2:414698/146‑1 (MQ=255)                                                                                                 atCATTGAGGTAATGCTTGAGGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTGTATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTa                                                   >  1:75258/1‑149 (MQ=255)                                                                                                    aTTGAGGTAGTGGTTGATGAATAATCGCCCCAGTCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAAtt                                                <  2:94506/149‑1 (MQ=255)                                                                                                    aTTGAGGTAATTCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAAtt                                                <  2:296144/149‑1 (MQ=255)                                                                                                                cTTGATGAATAATTGCCCCAGCCTTGAATTATCCATCCCTGTTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCaa                                    <  2:111366/149‑1 (MQ=255)                                                                                                                 ttGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTCTCAGCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAAc                                   >  1:494983/1‑149 (MQ=255)                                                                                                                    atgaATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAGTCCAGTGATATTTTTTTGGTGTTGTTATATTTTTTTTCTTGTAC‑TTTTTTTTCAGTTACTGAATCATTTTTAATTCATAATCTCCAACCCa                                >  1:476354/1‑149 (MQ=255)                                                                                                                         taatCGCCCCAGCCATGTATTATCTATTCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTta                           <  2:117314/149‑1 (MQ=255)                                                                                                                              gCCCCAGTCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTTataaaa                      <  2:187743/149‑1 (MQ=255)                                                                                                                                              attcatccCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTTATAAAATAAATAGTCAtaataa      <  1:288980/146‑1 (MQ=255)                                                                                                                                               tccatgcCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTTATAAAATAAATAGTCATAATaaa     <  2:486457/149‑1 (MQ=255)                                                                                                                                                  atccCTATTTTTGTTTTTTTTTTATTAAATCAGTGATATTTTTTGTGTTTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTTAGTTACTGAATCATTTTTAATTCATAATTTGCAACCCAATTTATAAAATAAATAGTCATAATAAattt  >  2:311842/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                   CAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAACCCAATTTATAAAATAAATAGTCATAATAAAGTT  >  NC_000913_3_pae_tpiA/3804832‑3805125

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.