New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1852545 =	NA (NA)	4 (0.060)	4/156	NT	NA	intergenic (+17/+76)	pncA/ydjE	nicotinamidase/pyrazinamidase/putative MFS sugar transporter, membrane protein
	?	NC_000913	1852562 =	NA (NA)					noncoding (1/36 nt)	REP132 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP132 (repetitive extragenic palindromic) element; contains 1 REP sequences

GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTgtaggcca‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1852645‑1852545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑attGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  NC_000913/1852562‑1852668                                                                                                                                                                                                                  GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAAT                                                                                                              <  2:1825148/100‑1     GAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGTCCTACAATGCCAGTACAGAATTGTA                                                                                                          >  2:1469576/1‑100      AGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAG                                                                                                         <  2:861691/100‑1      AGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAG                                                                                                         >  2:2106447/1‑100      AGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAG                                                                                                         <  2:2244278/100‑1       GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        <  1:105817/100‑1        ATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGC                                                                                                       <  2:1204849/100‑1        ATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGC                                                                                                       <  2:157261/100‑1         TTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGCC                                                                                                      >  2:2225751/1‑100         TTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGCC                                                                                                      <  2:1926705/100‑1                                 GTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACAT                                                                              >  1:1556061/1‑100                                                                          ATTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCA                                     >  1:400098/1‑100                                                                              GGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAA                                 >  1:977232/1‑100                                                                                CCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATC                               >  1:332827/1‑100                                                                                                     TGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGC          <  1:2136008/100‑1                                                                                                       TAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGT        >  1:1196361/1‑100                                                                                                         GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:1135233/1‑100                                                                                                          GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  2:108507/1‑100                                                                                                          GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  1:1478216/1‑100                                                                                                           CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCG    >  2:1026588/1‑100                                                                                                             AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  1:2214255/1‑100                                                                                                             AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  <  1:2067021/100‑1                                                                                                                                                                                                                  GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTgtaggcca‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1852645‑1852545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑attGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  NC_000913/1852562‑1852668

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.