New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	1116875 =	47 (1.020)	34 (0.930) +CATCTGTACT	4/76	NT	45.2%	coding (193/1227 nt)	mdtG	predicted drug efflux system
	?	W3110S.gb	1806604 =	57 (1.240)					pseudogene (1797/1900 nt) pseudogene (1313/1416 nt)	arpB arpB	ECK1718:JW5278+JW1710:b4494; hypothetical protein ECK1718:JW1710:b1721; hypothetical protein, C‑ter fragment

CAGCATTACATTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  W3110S.gb/1116888‑1116875 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCATCATAAGCATTATAAA  >  W3110S.gb/1806604‑1806623               ||||||||||                     tAGCATTACATTTTCATCTGTACTTTCATCATAAGCAGTAT     <  1:3825520/40‑1 tAGCATTACATTTTCATCTGTACTTTCATCATAAGCAGTAT     <  1:2542498/40‑1  AGCATTACATTTTCATCTGTACTTTCATCATAAGCAg        >  1:2033412/1‑36  AGCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:696809/1‑39  AGCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:235506/1‑39  AGCATTACATTTTCATCTGTACTTTCATCATAAGCA         <  1:3724710/36‑1  AGCATTACATTTTCATCTGTACTTTCATCATAAGCA         >  1:2534926/1‑36   GCATTACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:3298761/1‑42   GCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:1185985/1‑38   GCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:747308/1‑38   GCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:4359877/1‑38   GCATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      >  1:290840/1‑38   GCATTACATTTTCATCTGTACTTTCATCATAAGCA         >  1:4639116/1‑35    CATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      <  1:2682740/37‑1    CATTACATTTTCATCTGTACTTTCATCATAAGCAGTA      <  1:1088496/37‑1      TTACATTTTCATCTGTACTTTCATCATAAGCAGTATg    >  1:4562917/1‑36      TTACATTTTCATCTGTACTTTCATCATAAGCAGTATg    <  1:424725/37‑2      TTACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2974920/1‑39       TACATTTTCATCTGTACTTTCATCATAAGCAGTATg    <  1:2643648/36‑2       TACATTTTCATCTGTACTTTCATCATAAGCAGTAT     <  1:2732529/35‑1       TACATTTTCATCTGTACTTTCATCATAAGCAGTAT     <  1:1190993/35‑1        ACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2455445/1‑37        ACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2400141/1‑37        ACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:4169933/1‑37        ACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:4334062/1‑37        ACATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:683347/1‑37         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2443791/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:4152239/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:3057292/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:1480082/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:4531661/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2607467/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:4599044/1‑36         CATTTTCATCTGTACTTTCATCATAAGCAGTATGAA  >  1:2858947/1‑36               ||||||||||                     CAGCATTACATTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  W3110S.gb/1116888‑1116875 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCATCATAAGCATTATAAA  >  W3110S.gb/1806604‑1806623

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ 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.