New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1852545 =	NA (NA)	14 (0.110)	9/156	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                                                                                                               >  1:1072209/1‑100  GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAAT                                                                                                              >  1:137998/1‑100  GGAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAAT                                                                                                              <  2:994821/100‑1   GAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCTACTAACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATT                                                                                                             >  1:2962133/1‑100   GAAGAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATT                                                                                                             >  2:3842667/1‑100      GAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTA                                                                                                          <  1:1907572/100‑1      GAGATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTA                                                                                                          >  2:3053414/1‑100       AGATTTCTGAGGTGAATTAAATCTTTCTTTTATGTCGTCAATTGCCATATGTGCCACTGACGTGTTTTATTTGGCCTACACTTCCAGTACAGAATTG                                                                                                            <  2:1343402/97‑1       AGATTTCTGAGGTGAATTAAATCTTTCGTTGATTGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTA                                                                                                          <  1:1897282/99‑1        GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        >  1:2157494/1‑100        GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        <  2:3256493/100‑1        GATTTCTGAGGTGAATTAAATCTTTCGTTGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGG                                                                                                        >  2:1184186/1‑100                                    TGATGGCATCAATTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAAAATTGTAAGACAAATAAAACACGTCAGTGGCACATCT                                                                            >  1:579263/1‑100                                                TTGCCAGATGTGCCACTGACGTGTTTTATTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCCCATCTGGCAAT                                                                      >  2:1397070/1‑94                                                                           ATTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCA                                     >  2:672153/1‑100                                                                            TTTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAG                                    >  2:25284/1‑100                                                                             TTGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGA                                   >  2:3164396/1‑100                                                                              TGGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAA                                  >  1:1868089/1‑100                                                                               GGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAA                                 >  1:1412282/1‑100                                                                               GGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAA                                 >  1:2839230/1‑100                                                                               GGCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATACCATCAACGAAAGATTTAATTCACCTCAGAAA                                 >  2:1919947/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAAT                                >  2:598248/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAAT                                >  1:2088623/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAAT                                >  2:3835253/1‑100                                                                                GCCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTAGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAAT                                >  1:2237669/1‑100                                                                                 CCTACAATGCCAGTACAGAATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATC                               >  1:2853430/1‑100                                                                                                    ATTGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCC            <  1:2200199/100‑1                                                                                                      TGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGATATCTCTTCCAACGACACCTTCCGC          <  2:3119283/100‑1                                                                                                      TGTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGC          >  1:765013/1‑100                                                                                                       GTAGGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCG         <  1:994832/100‑1                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  2:252063/1‑100                                                                                                          GGCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTT      >  1:3482866/1‑100                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     <  1:2612729/100‑1                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  1:1395939/1‑100                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  2:2178587/1‑100                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  1:403931/1‑100                                                                                                           GCCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAAATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTC     >  1:248487/1‑100                                                                                                            CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCACCGACACCTTCCGCGTTTC     >  2:3116798/1‑99                                                                                                            CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCG    <  2:3062291/100‑1                                                                                                            CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCG    >  1:3026148/1‑100                                                                                                            CCAAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAAAAATCTCTTCAAACAACACCTTCCGCGTTTCG    >  1:3225765/1‑100                                                                                                              AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  2:3439084/1‑100                                                                                                              AAATAAAACACGTCAGTGGCACATCTGGCAATTGATGCCATCAACGAAAGATTTAATTCACCTCAGAAATCTCTTCCAACGACACCTTCCGCGTTTCGAT  >  2:1759967/1‑100                                                                                                                                                                                                                   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 < 12 ≤ ATCG/ATCG < 22 ≤ 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.