New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1852545 =	NA (NA)	8 (0.080)	5/156	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

TGGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTgtaggcca‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1852646‑1852545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑attGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  NC_000913/1852562‑1852668                                                                                                                                                                                                                   TGGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAA                                                                                                               >  1:2601524/1‑100  GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAAT                                                                                                              <  1:1963899/100‑1    AAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTG                                                                                                            >  2:2180703/1‑100     AGAGATTTCTGAGGTGAATTAAATCTTTCGTTGGTGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGT                                                                                                           >  2:2160552/1‑100      GAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTA                                                                                                          >  2:1495623/1‑100      GAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTA                                                                                                          >  2:2277054/1‑100        GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        <  1:1829411/100‑1        GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        >  2:2224653/1‑100         ATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGC                                                                                                       <  2:2867683/100‑1                                                                         TTATTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCT                                       >  1:2208487/1‑100                                                                              TGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAA                                  >  1:506929/1‑100                                                                               GGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAA                                 >  1:2794610/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAAT                                >  1:2187794/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGACATCAACGAAAGATTTATTTCAACTCAAAAA                                 >  2:3216754/1‑99                                                                                 nCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATC                               >  1:540990/2‑100                                                                                  CTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCT                              >  2:3210121/1‑100                                                                                  CTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCT                              >  1:2057386/1‑100                                                                                                    ATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCC            >  1:1246324/1‑100                                                                                                    ATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCC            >  1:2398341/1‑100                                                                                                      TGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGC          >  2:2652171/1‑100                                                                                                       GTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCG         <  1:1076980/100‑1                                                                                                        TAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCG         >  2:1932509/1‑99                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:568547/1‑100                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      <  2:285481/100‑1                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:2914140/1‑100                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:2804002/1‑100                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:12905/1‑100                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTT       >  2:2064618/1‑99                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  1:1026963/1‑100                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     <  2:2398331/100‑1                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     <  2:440394/100‑1                                                                                                            CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCG    <  1:2110466/100‑1                                                                                                             CAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGA   >  1:631937/1‑100                                                                                                             CAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGA   >  2:2435649/1‑100                                                                                                              AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGTCACCTTCCGCGTTTCa    <  1:174433/98‑2                                                                                                              AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  <  2:2698632/100‑1                                                                                                                                                                                                                   TGGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTgtaggcca‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1852646‑1852545 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑attGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  NC_000913/1852562‑1852668

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