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.

AATAAAATCTTCGCCAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAAC  >  NC_000913_3_pae_tpiA/3804799‑3805092                                                                                                                                                    |                                                                                                                                                    aaTAAAATCTTCGCCAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTtga                                                                                                                                                    <  1:118702/149‑1 (MQ=255)   tAAAATCTTCGCCAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTtgatg                                                                                                                                                  >  1:59160/1‑149 (MQ=255)    aaaaTCTTCGCCAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTtgatga                                                                                                                                                 <  1:85645/149‑1 (MQ=255)     aaaTCTTCGCTAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGGTGaa                                                                                                                                                >  1:143911/1‑149 (MQ=255)                        tttttAGAAGTAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACCCTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCa                                                                                                                             <  1:70526/146‑1 (MQ=255)                                 gCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTatccatc                                                                                                                    >  1:10518/1‑149 (MQ=255)                                  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)                                                                                                                                                    |                                                                                                                                                    AATAAAATCTTCGCCAACAGTATTTCTTAGAAGCAAAACTTTATGACAGTTAATATTTTTTAATATTTGTTTATTGATACCTTTATTAACAACACTGTCATTAATGATAATTATGTCATCTTTTTTAATATCATTGAGGTAATGCTTGATGAATAATCGCCCCAGCCATGCATTATCCATCCCTATTTTTGATATTTTTTTATTAATCCAGTTATATTTTTTTGGTGTTGTTATATTTTTTATCTTGTAC‑TTTTTTTTCAGGTACTGAATCATTTTTAATTCATAATCTGCAAC  >  NC_000913_3_pae_tpiA/3804799‑3805092

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.