New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 4456921	68 (1.770)	7 (0.190)	4/300	NT	9.8%	coding (143/948 nt)	treR	trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor
	?	CP009273	= 4457009	64 (1.740)					coding (55/948 nt)	treR	trehalose 6‑phosphate‑inducible trehalose regulon transcriptional repressor

TCTGTTATGCCAGTAAAACCGAACAGCACTACGCCGTCGATATTACGCCGTTTCAGCACTCCCAAATGTTCGGCAACTAATTGCGGGGAAAACTGACTTTCCATCATGATTGGGTCGTAACCTTGTTCATAGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/4456669‑4456921 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggggaaaTCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGATTCGTTGTCAGAAAATCTCGCCGTTCAAACCATGCTGCCAGCGTTCTATGAACAAGGTTACGACCCAATCATGATGGAAAGTCAGTTTTCCCCGCAATTAGTTGCC  <  CP009273/4457009‑4456740                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              TCTGTTATGCCAGTAAAACCGAACAGCACTACGCCGTCGATATTACGCCGTTTCAGCACTCCCAAATGTTCGGCAACTAATTGCGGGGAAAACTGACTTTCCATCATGATTGGGTCGTAACCTTGTTCATAGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGCTTAAGCGGCGTGGGGAAATCTACAGTTTCCCGGGTGCTG                                                                                                                                                                                                                                                           <  1:426111/275‑1                                                                                                                            TGTTCATAGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAG                                                                                                                                                                                                                                                                                      >  1:216990/1‑124                                                                                                                                CATAGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGA                                                                                                                                                                                                                                                                                  <  2:216986/124‑1                                                                                                                                   AGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCTAGCGTGTTG                                                                                                                                                                                                                >  1:390449/1‑187                                                                                                                                       CGCTGGAAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGC                                                                                                                                                                                                            <  2:390443/187‑1                                                                                                                                                                                                       GCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGG                                                                                                                                                                                                                                                                                   <  2:649340/52‑1                                                                                                                                                                                                                        TTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTG                                                                                                                                                                                                                >  1:601931/1‑102                                                                                                                                                                                                                        TTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGT                                                                                                                                                                                                                                                               >  2:132735/1‑55                                                                                                                                                                                                                            CCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGC                                                                                                                                                                                                            <  2:601922/102‑1                                                                                                                                                                                                                            CCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAATCTACAGTTTCCCGGGTGCTG                                                                                                                                                                                                                                                           <  1:132736/55‑1                                                                                                                                                                                                                                                         GGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGATTCGTTGTCAGAAAATCTCG                                                                                        >  1:323181/1‑190                                                                                                                                                                                                                                                         GGGAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTC                                                                                                                                   >  1:582518/1‑147                                                                                                                                                                                                                                                           GAAATGTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAAGCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCCGGATTCGTTGTCAGAAAATCTCGCCGTTCAAACCATGCTGCCAGCGTTCTATGAACAAGGTTACGACCCAATCATGATGGAAAGTCAGTTTTCCCCGCAATTAGTTGCC  <  1:10450/274‑1                                                                                                                                                                                                                                                           GAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGATTCGTTGTCAGAAAATCTCGCCGTTCAAACCATGCTGCCAGCGTT                                                               <  1:61975/213‑1                                                                                                                                                                                                                                                           GAAATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCAT                                                                                                                              <  2:366860/150‑1                                                                                                                                                                                                                                                           GAAATCTACAGTTNCCCGGGTGCTGAATAACGAAAGCGGCTTTAGTCAGCTCAACCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGAGTCGTTGTCAGAAAATCTCGCCGTTCAAACCATGCTGCCAGCGTTCTATGAACAAGGTTACGACCCAATCATGATGGAAAGTCAGTTTTCCCCGCAATTAGTTGCC  <  2:535331/274‑1                                                                                                                                                                                                                                                           GAAATCTACAGTGTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCG                                                                                                                                                                    <  2:503257/112‑1                                                                                                                                                                                                                                                             AATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGATTCGTTGTCAGAAAATCTCGCCGT                                                                                    <  2:323175/190‑1                                                                                                                                                                                                                                                             AATCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCA                                                                                                                               <  2:582509/147‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              TCTGTTATGCCAGTAAAACCGAACAGCACTACGCCGTCGATATTACGCCGTTTCAGCACTCCCAAATGTTCGGCAACTAATTGCGGGGAAAACTGACTTTCCATCATGATTGGGTCGTAACCTTGTTCATAGAACGCTGGCAGCATGGTTTGAACGGCGAGATTTTCTGACAACGAATCCAGACGGGTAACAATGATGGCGACCACTTTATCGCTTTGCCCACGCATAGCGCGCGC‑AGAGCGGGAAGGGGAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/4456669‑4456921 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggggaaaTCTACAGTTTCCCGGGTGCTGAATAACGAAAGCGGCGTGAGCCAGCTCACCCGCGAGCGTGTTGAAGCAGTGATGAATCAGCATGGATTTTCCCCTTCCCGCTCTGCGCGCGCTATGCGTGGGCAAAGCGATAAAGTGGTCGCCATCATTGTTACCCGTCTGGATTCGTTGTCAGAAAATCTCGCCGTTCAAACCATGCTGCCAGCGTTCTATGAACAAGGTTACGACCCAATCATGATGGAAAGTCAGTTTTCCCCGCAATTAGTTGCC  <  CP009273/4457009‑4456740

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ 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.