New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3163644 =	NA (NA)	16 (0.170)	4/160	NT	NA	noncoding (1/30 nt)	REP223 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP223 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	3163674 =	NA (NA)					intergenic (‑193/+41)	plsC/parC	1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase/DNA topoisomerase IV, subunit A

TCCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTCATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3163751‑3163644 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcatccggcGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  >  NC_000913/3163674‑3163771                                                                                                                                                                                                                TCCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGT                                                                                                            >  2:2562736/1‑100  CCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTC                                                                                                           >  1:1231121/1‑100  CCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTC                                                                                                           >  2:2196004/1‑100  CCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTC                                                                                                           <  2:1107328/100‑1  CCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTC                                                                                                           >  1:2388179/1‑100      GCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTCATCC                                                                                                       <  2:168135/100‑1         GTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTCATCCGGC                                                                                                    <  2:2205830/100‑1                                                                             ACGCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGC                                >  1:2285495/1‑100                                                                              CGCCGGATGAAACGTTACGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACACCGCCCTCCCCGGCATATTACGCTTCGCTATCACCGCTGCT                                   >  1:1269421/1‑96                                                                              CGCCGGATGAAACGTTAAGTCGTCGTCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCTCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCA                               >  2:860175/1‑100                                                                              CGCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTCCTCTTCGCTATCACCGCTGC                                    >  1:2103710/1‑95                                                                              CGCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCA                               >  2:213642/1‑100                                                                              CGCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATAACCGCTGCTGGC                                >  1:556717/1‑99                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  1:343533/1‑100                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  2:2209902/1‑100                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  1:2337612/1‑100                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  2:1631910/1‑100                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  2:1676791/1‑100                                                                               GCCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCAC                              >  2:334043/1‑100                                                                                CCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACG                             >  2:833296/1‑100                                                                                CCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACG                             >  2:2912199/1‑100                                                                                CCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACG                             >  2:674539/1‑100                                                                                CCGGATGAAACGTTAAGTCGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCCCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACG                             >  1:2297703/1‑100                                                                                                  CGTCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTC           <  1:213641/100‑1                                                                                                    TCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAA         >  2:431917/1‑100                                                                                                    TCATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATAACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAA         <  1:2474197/100‑1                                                                                                     CATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAAC        <  2:1790510/100‑1                                                                                                     CATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAAC        <  2:1746362/100‑1                                                                                                     CATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAAC        <  1:2154422/100‑1                                                                                                      ATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACA       >  2:1688324/1‑100                                                                                                      ATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACA       >  2:725688/1‑100                                                                                                      ATCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACA       >  2:287164/1‑100                                                                                                       TCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACAC      >  2:2356304/1‑100                                                                                                       TCCGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACAC      <  1:287163/100‑1                                                                                                       TCCGGCGTTCCTTGCAAGCGCGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACAC      >  1:1780019/1‑100                                                                                                         CGGCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGA    >  2:2540271/1‑100                                                                                                           GCGTTCCTTGCATGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  1:2575409/100‑1                                                                                                           GCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  2:187572/100‑1                                                                                                           GCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  2:1540466/100‑1                                                                                                           GCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  2:1201836/100‑1                                                                                                           GCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  1:499363/100‑1                                                                                                           GCGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  <  1:24418/100‑1                                                                                                                                                                                                                TCCTCGCCGTGCCAGCAGCGGTGATAGCGAAGAGTAATATGCCGGGGAGGGCGCTGTTTCCTCCCGCTTGCAAGGAACGCCGGATGAAACGTTAAGTCGTCATCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3163751‑3163644 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcatccggcGTTCCTTGCAAGCGGGAGGAAACAGCGCCCTCCCCGGCATATTACTCTTCGCTATCACCGCTGCTGGCACGGCGAGGAGAGTCGATCTCAACACGATC  >  NC_000913/3163674‑3163771

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.