New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	4527689 =	4 (0.320)	6 (0.510)	6/244	0.7	64.0%	coding (208/432 nt)	sgcA	putative phosphotransferase enzyme IIA component
	?	NC_000913_3_pae_tpiA	4527721 =	3 (0.260)					coding (176/432 nt)	sgcA	putative phosphotransferase enzyme IIA component

ACCAAAGGCGACCGGGGTGCGTAGCGTGGTGATACTGACCTGATTATAGTTTGCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTAGCATGGCTGCGCGGCACCATAGGCTACCAGCGGGCGGGTGGCGATTTCCACGG  >  NC_000913_3_pae_tpiA/4527636‑4527838                                                                                      |                                                                                                                      aCCAAAGGCGACCGGGGTGCGTAGCGTGGTGATACTGACCTGATTATAGTTTGCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTa                                                       <  2:59096/150‑1 (MQ=255)  ccAAAGGCGACCGGGGTGCGTAGCGTGGTGATACTGACCTGATTATAGTTTGCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTAg                                                      >  1:60642/1‑150 (MQ=255)   cAAAGGCGACCGGGGTGCGTAGCGTGGTGATACTGACCTGATTATAGTTTGCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTAGc                                                     <  2:87595/150‑1 (MQ=255)                             cttattatctgatagccccaggaatcgccttgcctcacgcccgaccagagcaaggcgATTCCTGGGGCTATCAGATAATAAg                                                                                               >  3:72738‑M2/58‑82 (MQ=255)                             cttattatctgatagccccaggaatcgccttgcctcacgcccgaccagagcaaggcgATTCCTGGGGCTATCAGATAATAAg                                                                                               <  4:72738‑M2/25‑1 (MQ=255)                             cttattatctgatagccccaggaatCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAg                                                                                               >  3:72738‑M1/26‑82 (MQ=255)                             cttattatctgatagccccaggaatCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAg                                                                                               <  4:72738‑M1/57‑1 (MQ=255)                                               caggaatcgccttgcctcacgcccgaccagagcaaggcgATTCCTg                                                                                                                 >  3:24398‑M2/40‑46 (MQ=255)                                               caggaatcgccttgcctcacgcccgaccagagcaaggcgATTCCTg                                                                                                                 <  4:24398‑M2/7‑1 (MQ=255)                                               caggaatCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTg                                                                                                                 >  3:24398‑M1/8‑46 (MQ=255)                                               caggaatCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTg                                                                                                                 <  4:24398‑M1/39‑1 (MQ=255)                                                      CGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTAGCATGGCTGCGCGGCACCATAGGCTACCAGCGGGCGGGTGGCGATTTCCACgg  >  3:45599‑M1/1‑150 (MQ=255)                                                        ccttgcctcacgcccgaccagagcaaggcgATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCga                                                                       >  1:44447‑M2/31‑79 (MQ=255)                                                        ccttgcctcacgcccgaccagagcaaggcgATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCga                                                                       <  2:44447‑M2/49‑1 (MQ=255)                                                           TGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGccccc                                                                                         <  3:77617‑M1/58‑1 (MQ=255)                                                           TGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGccccc                                                                                         >  4:77617‑M1/1‑58 (MQ=255)                                                                                      |                                                                                                                      ACCAAAGGCGACCGGGGTGCGTAGCGTGGTGATACTGACCTGATTATAGTTTGCGCCTTGCTCTGGTCGGGCGTGAGGCAAGGCGATTCCTGGGGCTATCAGATAATAAGGCCCCCAGTTAAGGGTATTTTCGATGATCCCATTAACGTAGCATGGCTGCGCGGCACCATAGGCTACCAGCGGGCGGGTGGCGATTTCCACGG  >  NC_000913_3_pae_tpiA/4527636‑4527838

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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.