New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3650712 =	NA (NA)	16 (0.120)	9/164	NT	NA	noncoding (1/100 nt)	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913	3650744 =	NA (NA)					noncoding (33/100 nt)	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP262 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site

AAAATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3650817‑3650712 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccgacCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCGT  >  NC_000913/3650744‑3650842                                                                                                                                                                                                               AAAATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCA                                                                                                           >  2:2477132/1‑100   AATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATC                                                                                                         <  2:1171930/100‑1    ATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCC                                                                                                        <  1:232133/100‑1    ATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCC                                                                                                        <  2:2203086/100‑1      CGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGA                                                                                                      >  1:2958309/1‑100       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTTTAGGTCGGATAAGACGCTCCAGCGTCGCATCCGAC                                                                                                     >  2:2428880/1‑100       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC                                                                                                     >  1:1961525/1‑100       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC                                                                                                     >  2:555158/1‑100       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC                                                                                                     <  2:3343447/100‑1       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC                                                                                                     <  2:1658797/100‑1       GCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC                                                                                                     <  1:555155/100‑1                                                              CATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCG                                              >  2:1063206/1‑100                                                                    TTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGC                                        >  1:3126985/1‑100                                                                       GTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGACATACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATC                                     >  1:3566539/1‑100                                                                        TAGGTCGGATAAGACGCGCCAGCGTCTTATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCA                                    >  1:974138/1‑100                                                                        TAGGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCA                                    >  1:1328843/1‑100                                                                        TAGGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCA                                    >  2:801939/1‑100                                                                         AGGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAG                                   >  2:2742064/1‑100                                                                          GGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGG                                  >  1:2376572/1‑100                                                                          GGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGG                                  >  1:3224606/1‑100                                                                          GGTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGG                                  >  2:2433111/1‑100                                                                           GTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGC                                 >  2:1332789/1‑100                                                                           GTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGC                                 >  2:451802/1‑100                                                                           GTCGGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGC                                 >  1:981720/1‑100                                                                              GGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGAT                              >  2:1267731/1‑100                                                                              GGATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGAT                              >  2:3192929/1‑100                                                                               GATAAGACGCGCCAGCGTCGCATCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATT                             >  1:3083907/1‑100                                                                                                     TCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCC       >  2:1618857/1‑100                                                                                                     TCCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCC       >  2:1034863/1‑100                                                                                                      CCGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCT      >  2:3609888/1‑100                                                                                                       CGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTG     <  1:2956182/100‑1                                                                                                       CGACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGAGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCACTG     >  1:2080166/1‑100                                                                                                        GACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGC    >  2:280256/1‑100                                                                                                        GACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGC    <  2:1058902/100‑1                                                                                                         ACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCG   >  2:358135/1‑100                                                                                                         ACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCG   <  2:1409650/100‑1                                                                                                         ACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCG   <  2:537575/100‑1                                                                                                         ACCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCG   <  2:1085756/100‑1                                                                                                          CCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATTAGGCGATTTTGCTATTTACACAGTACTCCCTGCGT  >  2:3496965/1‑100                                                                                                                                                                                                               AAAATCGCCTGATGCGCTACGCCTGTCAGGCCTACAAATAACATACTATTCATCGAATTTTCATAACTTTGTAGGTCGGATAAGACGCGCCAGCGTCGCATCCGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3650817‑3650712 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccgacCTACAAAGTTATGAAAATTCGATGAATAGTATGTTATTTGTAGGCCTGACAGGCGTAGCGCATCAGGCGATTTTGCTATTTACACAGTACTCCCTGCGT  >  NC_000913/3650744‑3650842

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.