New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 5685899	42 (0.590)	4 (0.060)	4/330	NT	8.8%	coding (994/4941 nt)	PP_4988	signal transduction histidine kinase CheA/CheY‑like receiver
	?	AE015451	= 5685911	43 (0.640)					coding (982/4941 nt)	PP_4988	signal transduction histidine kinase CheA/CheY‑like receiver

CGTGCCATCTCGATAAAGGGTTGGCCATCGGCCAGCGGGTCTGCCGCCCGCCATTGCAGGTAGCATTCGGCAGCGCTCAGTGCCTCGGCCAAGTGCGTCAGCTCATCAATCGGCGGCTCTTCCTCCAGGTGCTGCAACCAACGCTGCACATAGCTTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCATCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/5685661‑5685899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccccggcaaCGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGAATGCTACCTGCAATGGCGGGCGGCAGACCCGCTGGCCGATGGCCAACC  <  AE015451/5685911‑5685679                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CGTGCCATCTCGATAAAGGGTTGGCCATCGGCCAGCGGGTCTGCCGCCCGCCATTGCAGGTAGCATTCGGCAGCGCTCAGTGCCTCGGCCAAGTGCGTCAGCTCATCAATCGGCGGCTCTTCCTCCAGGTGCTGCAACCAACGCTGCACATAGCTTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCATCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGG                                                                                                                                                                                                                                              >  1:1036562/1‑236                         CCATCGGCCAGCGGGTCTGCCGCCCGCCATTGCAGGTAGCATTCGGCAGCGCTCAGTGCCTCGGCCAAGTGCGTCAGCTCATCAATCGGCGGCTCTTCCTCCAGGTGCTGCAACCAACGCTGCACATAGCTTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCATCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGC                                                                                                                                                                                                                                             >  2:879617/1‑213                                                                                                                                GGTGCTGCAACCAACGCTGCACATAGCGTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCGTCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCGCCGGC                                                                                                                                                                                                                                             <  2:66325/110‑1                                                                                                                                                      ATAGCTTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCATCCACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCACCGGCAACG                                                                                                                                                                                                                                         >  2:34197/1‑92                                                                                                                                                                     GACAAACAGCTCGGCCACGGCCGGCAGCATCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATGCGCGGGGCATTGGCCATGTTGAT                                                                                                                                                                                >  1:566843/1‑134                                                                                                                                                                                                    AACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGC                                                                                                                              >  1:1202298/1‑153                                                                                                                                                                                                    AACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGC                                                                                                                              <  2:1202293/153‑1                                                                                                                                                                                                                 CCCCGCGGATCTGCTGCAACAGCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGA                                                            >  2:824032/1‑206                                                                                                                                                                                                                                      GCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGAATGCTACCTGCAATGGCGGGCGGCAGACCCGCTGGCCGAT          <  1:633809/235‑1                                                                                                                                                                                                                                      GCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGAATGCTACCTGCAATGGCGGGCGGCAGACCCGCTGGCCGAT          <  1:926310/235‑1                                                                                                                                                                                                                                      GCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGA                                                  <  1:962474/195‑1                                                                                                                                                                                                                                      GCCCCGGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTG                                                                                          >  2:815771/1‑155                                                                                                                                                                                                                                           GGCAACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCCTTGGCCATGTTGAAGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGGTGCAGCAACTGGAG                                                                                                          >  2:208636/1‑134                                                                                                                                                                                                                                              AACGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGAATGCTACCTGCAATGGCGGGCGGCAGACCCGCTGGCCGATGGCCAACC  >  1:794073/1‑235                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CGTGCCATCTCGATAAAGGGTTGGCCATCGGCCAGCGGGTCTGCCGCCCGCCATTGCAGGTAGCATTCGGCAGCGCTCAGTGCCTCGGCCAAGTGCGTCAGCTCATCAATCGGCGGCTCTTCCTCCAGGTGCTGCAACCAACGCTGCACATAGCTTGCGCAGCCGACAAACAGCTCGGCCACGGCCGGCAGCATCAACATGGCCAATGCCCCGCGGATCTGCTGCAACAGCCCCGGCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/5685661‑5685899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccccggcaaCGCCTGCAGCCCTTGCCGGGGCTGTTGCAGCAGATCCGCGGGGCATTGGCCATGTTGATGCTGCCGGCCGTGGCCGAGCTGTTTGTCGGCTGCGCAAGCTATGTGCAGCGTTGGTTGCAGCACCTGGAGGAAGAGCCGCCGATTGATGAGCTGACGCACTTGGCCGAGGCACTGAGCGCTGCCGAATGCTACCTGCAATGGCGGGCGGCAGACCCGCTGGCCGATGGCCAACC  <  AE015451/5685911‑5685679

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ 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.