New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1357754 =	NA (NA)	8 (0.110)	3/160	NT	NA	intergenic (‑86/+48)	ymjA/puuP	DUF2543 family protein/putrescine importer
	?	NC_000913	1357793 =	NA (NA)					noncoding (24/30 nt)	REP111 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP111 (repetitive extragenic palindromic) element; contains 1 REP sequences

CGCCGCTATCGCAAAGTGCCGTTGTATGATGGTGACAGAACGCCGGTGAGTGAAACGTAATAGTCGGATGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1357861‑1357754 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgccgcgcATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCCTAA  >  NC_000913/1357793‑1357891                                                                                                                                                                                                                 CGCCGCTATCGCAAAGTGCCGTTGTATGATGGTGACAGAACGCCGGTGAGTGAAACGTAATAGTCGGATGCGCGGCGCATTATCCTGCCTGAGGGTAACG                                                                                                             >  2:1594407/1‑100     GCTATCGCAAAGTGCCGTTGTATGATGGTGACAGAACGCCGGTGAGTGAAACGTAATAGTCGGATGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCC                                                                                                         >  2:733104/1‑100        ATCGCAAAGTGCCGTTGTATGATGGTGACAGAACGCCGGTGAGTGAAACGTAATAGTCGGATGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCG                                                                                                      <  2:401223/100‑1                                                                   GATGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTG                                           >  1:1088746/1‑100                                                                        GCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATA                                      >  2:167424/1‑100                                                                        GCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATA                                      >  2:1156293/1‑100                                                                         CGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAG                                     >  2:222141/1‑100                                                                         CGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAG                                     >  1:190341/1‑100                                                                         CGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAG                                     >  1:1938304/1‑100                                                                         CGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGCATCCGACTATTACGATTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAG                                     >  1:1761060/1‑100                                                                         CGGCGCATTATCCTGCCTGAGGGAAACACGCCGCGCATCCGACTCTTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTACGATAG                                     >  2:2054844/1‑100                                                                                                     CGCCGCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGC         >  1:408883/1‑100                                                                                                      GCCGCGCCTCCGACTATTACGTTACACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCC        >  2:438103/1‑100                                                                                                         GCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCC     >  1:2121844/1‑100                                                                                                         GCGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCC     <  1:1632093/100‑1                                                                                                          CGCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCCT    <  1:1903213/100‑1                                                                                                           GCATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCCTA   <  1:1156297/100‑1                                                                                                            CATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCGCTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCCTAA  <  1:1499620/100‑1                                                                                                                                                                                                                 CGCCGCTATCGCAAAGTGCCGTTGTATGATGGTGACAGAACGCCGGTGAGTGAAACGTAATAGTCGGATGCGCGGCGCATTATCCTGCCTGAGGGTAACGCGCCGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1357861‑1357754 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgccgcgcATCCGACTATTACGTTTCACTCACCGGCGTTCTGTCACCATCATACAACGGCACTTTGCGATAGCGGCGGATCAGATACCATAAATATGCGCCGCCTAA  >  NC_000913/1357793‑1357891

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