New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	376748 =	NA (NA)	11 (0.040)	8/94	NT	NA	intergenic (‑33/‑59)	yaiX/insC1	pseudogene, interrupted by IS2A, acetyltransferase homolog; nonfunctional; interruped by IS2; putative transferase/IS2 repressor TnpA
	?	CP009273	376768 =	NA (NA)					intergenic (‑53/‑39)	yaiX/insC1	pseudogene, interrupted by IS2A, acetyltransferase homolog; nonfunctional; interruped by IS2; putative transferase/IS2 repressor TnpA

TAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAG  >  CP009273/376701‑376780                                                                    |             tAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              <  1:15335004/68‑1 (MQ=255) tAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              <  1:13556884/68‑1 (MQ=255) tAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              >  1:12298973/1‑68 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              >  1:10502899/1‑67 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              >  1:21172084/1‑67 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:21056880/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:23687977/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:25210176/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:11225887/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:14901978/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:13929669/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:5690944/68‑1 (MQ=255)  aaaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt             <  1:4848880/68‑1 (MQ=255)   aaggCATAATTACTAGACTGGCCGCCTGAATCTCCAGACTACCAATATCACTTAAATTAGTGATAGTc            <  1:20869530/65‑1 (MQ=14)   aaCGCATAATTCCTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:14186228/68‑1 (MQ=255)   aaCGCATAATTACTATACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:9219498/68‑1 (MQ=255)   aaCGCATAATTACTAGTCTGGCCCCCTGAATCTCCTGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:4186612/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAg              >  1:9566722/1‑66 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:10673126/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:5179751/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:20914606/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:9398289/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:23014327/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:23786628/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:24629051/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:24934348/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:9004053/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:25217035/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:25269178/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:25532986/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:25784004/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:26258018/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:8184857/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:6406925/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:26618259/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:26810181/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:27929699/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:28792357/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:29149512/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:6039935/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:3400603/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:5770856/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:10968010/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:13594114/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:14118233/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:14151429/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:12834649/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:1198458/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:11823245/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:11472817/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:14271401/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:15417678/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:15553442/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:15878942/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:16070827/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:10877819/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:207213/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:20176315/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:10700288/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:17514764/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:1082096/68‑1 (MQ=255)   aaCGCATAATTACTAGACTGGCCCCCTGAATATCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:19180467/68‑1 (MQ=255)   aaCGCAAAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTc            <  1:10870288/68‑1 (MQ=255)     cGCATAATTACTAGACTGGCCCCCTGAATCTCCAGCCAACCAATATCACTTAAATAAGTGATAGTCtt          >  1:2662689/1‑68 (MQ=255)     cGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCtt          >  1:21517128/1‑68 (MQ=255)     cGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCtt          >  1:22505588/1‑68 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         <  1:17378326/68‑1 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         <  1:28582159/68‑1 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         <  1:28117945/68‑1 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         <  1:19039509/68‑1 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         >  1:14410525/1‑68 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         >  1:24453697/1‑68 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa         >  1:17324363/1‑68 (MQ=255)      gCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGACTTa         >  1:7936427/1‑68 (MQ=255)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:11973649/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:7582746/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:20482792/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:4003144/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:27935466/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       <  1:14264830/68‑1 (MQ=40)        aTAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAACTGATAGTCTTAAt       <  1:21265839/68‑1 (MQ=255)          aaTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt       >  1:27538999/1‑66 (MQ=37)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    <  1:28212953/68‑1 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    >  1:12443688/1‑68 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    <  1:28199961/68‑1 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    >  1:6002241/1‑68 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    >  1:27115952/1‑68 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    <  1:16201562/68‑1 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    >  1:24198416/1‑68 (MQ=35)           aTTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt    >  1:21686426/1‑68 (MQ=35)            ttACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa   >  1:1293454/1‑68 (MQ=33)             tACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAg  <  1:15474001/68‑1 (MQ=31)             tACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAg  <  1:25457696/68‑1 (MQ=31)                                                                    |             TAAACGCATAATTACTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAG  >  CP009273/376701‑376780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ 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.