New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3680409	NA (NA)	10 (0.080)	5/160	NT	NA	noncoding (43/76 nt)	REP265 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP265 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 3680441	NA (NA)					noncoding (75/76 nt)	REP265 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP265 (repetitive extragenic palindromic) element; contains 2 REP sequences

GCGGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATAcctgatggt‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3680311‑3680409 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCGC  <  NC_000913/3680441‑3680334                                                                                                                                                                                                                 GCGGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATAC                                                                                                             <  2:1524698/100‑1  CGGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACC                                                                                                            <  2:1431424/100‑1  CGGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACC                                                                                                            <  1:3517743/100‑1   GGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCT                                                                                                           <  2:894150/100‑1     CGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGA                                                                                                         >  1:3409312/1‑100      GCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGATGGATAAAGTGTTACCCCACTATCCAGCTCATCAATAAATAACTGAT                                                                                                        >  2:336050/1‑100       CGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATG                                                                                                       <  1:2251188/100‑1       CGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATG                                                                                                       <  2:1176670/100‑1        GATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATG                                                                                                       <  1:3472929/99‑1         ATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGT                                                                                                     <  1:1924984/100‑1         ATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGT                                                                                                     <  1:421379/100‑1            ATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGAT                                                                                                  <  2:1174401/100‑1                   GTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAG                                                                                           <  1:1351160/100‑1                   GTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAG                                                                                           <  1:641806/100‑1                               CAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAG                                                                               <  2:700232/100‑1                                AGCGTAAACGCAGCATATGCAAAAGTCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGG                                                                              <  2:393431/100‑1                                AGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGG                                                                              <  1:902837/100‑1                                AGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGG                                                                              <  2:2637968/100‑1                                AGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGG                                                                              <  2:1447409/100‑1                                 GCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAAGCATCAGG                                                                              <  2:1436001/99‑1                                        CGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATG                                                                      <  1:1553453/100‑1                                                   CAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCTATAAATACCTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGA                                                           <  1:4899/100‑1                                                                                                     CTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTG         <  1:1305041/100‑1                                                                                                     CTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTG         >  2:3610605/1‑100                                                                                                     CTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTG         >  1:2322115/1‑100                                                                                                      TGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGG        <  1:2001869/100‑1                                                                                                      TGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGG        <  2:1207368/100‑1                                                                                                      TGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGG        >  2:864335/1‑100                                                                                                       GATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAAAACTTTATCCAGCCTTTTGCATATGCTGCGTTTA              >  2:3762338/1‑93                                                                                                          GGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATC    >  2:434773/1‑100                                                                                                           GTGATGAGTTAGCACAACCATCGGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCATTTGCATATGCTGCGTTTACGCTGGCATCG   >  2:1583402/1‑100                                                                                                           GTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCG   >  2:1262613/1‑100                                                                                                           GTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCG   <  1:51161/100‑1                                                                                                           GTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCG   >  1:74980/1‑100                                                                                                            TGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCGC  >  2:2335271/1‑100                                                                                                            TGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCGC  >  2:2089577/1‑100                                                                                                                                                                                                                 GCGGCGCGATTATCCCGCGTGAGGCGATGCCAGCGTAAACGCAGCATATGCAAAAGGCTGGATAAAGTGTTACCCCTCTATCCAGCTCATCCATAAATAcctgatggt‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3680311‑3680409 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CCTGATGGTGATGAGTTAGCACAACCATCAGGTATTTATGGATGAGCTGGATAGAGGGGTAACACTTTATCCAGCCTTTTGCATATGCTGCGTTTACGCTGGCATCGC  <  NC_000913/3680441‑3680334

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.