New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	= 2018583	18 (0.640)	24 (0.880)	3/104	0.4	58.1%	coding (579/687 nt)	fliH	flagellar biosynthesis protein
	?	W3110S.gb	= 2521059	NA (NA)					intergenic (+170/+30)	insL/yfeA	predicted transposase/predicted diguanylate cyclase

CGCTACCTTAAGTTTGCATGGCTGGCGCTTGCGGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAGTGTCGC  >  W3110S.gb/2018538‑2018642                                              |                                                            gcgtaataccacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTggcggc                                              >  1:2494481‑M1/34‑61 (MQ=255) gcgtaataccacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTggcggc                                              >  1:2813509‑M1/34‑61 (MQ=255) gcgtaataccacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTggcggc                                              >  1:1263124‑M1/34‑61 (MQ=255) gcgtaataccacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTggcggc                                              >  1:1517746‑M1/34‑61 (MQ=255)        accacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGt                                      >  1:2353421‑M1/27‑62 (MQ=255)        accacaacccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGt                                      >  1:1812451‑M1/27‑62 (MQ=255)                ccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGTCTccgccg                              <  1:1144467‑M1/44‑1 (MQ=255)                ccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGTCTccgccg                              <  1:1556885‑M1/44‑1 (MQ=255)                ccttaagttagcgcttatGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGTCTccgccg                              <  1:1008371‑M1/44‑1 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaat                        >  1:446712‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaat                        >  1:78641‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaat                        >  1:2786748‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaat                        >  1:933099‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaat                        >  1:2249428‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaa                         >  1:2677556‑M1/1‑25 (MQ=255)                      ctggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaa                         >  1:2395925‑M1/1‑25 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:426386‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:2966541‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:2916125‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:71583‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:2406715‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:993002‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:2130371‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:140805‑M1/62‑39 (MQ=255)                       tggcGCTTGCGGGGCGATCCCACCataagcgctaacttaagggttgaaccatctgaagaatg                       <  1:1428664‑M1/62‑39 (MQ=255)                                cGGGGCGATCCCTCCataagggctaacttaagggttgaacaatctgaagaatg                       <  1:1883379‑M1/53‑39 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:965873/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:1985864/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:721811/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:2520583/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:1726677/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:407232/1‑62 (MQ=255)                                       aTCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:3108096/1‑62 (MQ=255)                                       aTCCCACCCCCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgt       >  1:1220171/1‑62 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:2275569/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:980783/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:80086/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:564380/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:2248010/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:249488/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:1679324/61‑1 (MQ=255)                                         cccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:2496155/61‑1 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:117050‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:912955‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:717710‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:1222880‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:2665163‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:1328308‑M1/1‑5 (MQ=255)                                          ccaccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcg     >  1:16124‑M1/1‑5 (MQ=255)                                          ccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:1728614/60‑1 (MQ=255)                                          ccACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAgtg      <  1:2306769/60‑1 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:2702589‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:725390‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:878484‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:970391‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:1500254‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcctcgtta  <  1:2881294‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacgcctcggtgcatcgtta  <  1:287363‑M1/61‑60 (MQ=255)                                             ccataagcgctaacttaagggttgaaccatctgaagaatgcgacg                  <  1:1213150‑M1/45‑44 (MQ=255)                                              |                                                            CGCTACCTTAAGTTTGCATGGCTGGCGCTTGCGGGGCGATCCCACCCTCCATCCTGGCGGCTGTAAAGTCTCCGCCGATGAAGGCGATCTCGACGCCAGTGTCGC  >  W3110S.gb/2018538‑2018642

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.