New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3546222 =	NA (NA)	24 (0.170)	8/166	NT	NA	noncoding (1/36 nt)	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	3546254 =	NA (NA)					noncoding (33/36 nt)	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences

TATCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3546324‑3546222 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcgggcCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAATT  >  NC_000913/3546254‑3546352                                                                                                                                                                                                            TATCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCG                                                                                                        <  2:2491266/100‑1  ATCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGG                                                                                                       >  1:2191968/1‑100  ATCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGG                                                                                                       <  2:2956203/100‑1   TCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCTCATCGGG                                                                                                      <  1:2205594/100‑1   TCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGG                                                                                                      >  1:3314001/1‑100    CGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGC                                                                                                     <  1:429156/100‑1    CGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGC                                                                                                     <  1:2864904/100‑1    CGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGG                                                                                                      >  2:3354854/1‑99    CGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGATGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCAAAATGACGCTTTAGCGTCGCATCGGG                                                                                                      >  2:175689/1‑99                                                        CACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGTGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTC                                                 >  2:3479373/1‑100                                                                CAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTT                                         >  1:3657821/1‑100                                                                 AACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTT                                        >  2:139117/1‑100                                                                 AACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTT                                        >  1:1342676/1‑100                                                                 AACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTC                                            >  2:3791168/1‑96                                                                    GTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCC                                     >  1:2267633/1‑100                                                                    GTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCC                                     >  1:4194031/1‑100                                                                     TAGGCCCGAAATGACGCTTTCGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGGTGGCGCAGCATTGCTTGGTCAAATCCTCGCGCCGATTCCCC                                    >  2:101307/1‑100                                                                     TAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCC                                    >  1:4018629/1‑100                                                                     TAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTACTTTGTCAAATCCTCGGTTCGTTTCTCC                                    >  2:1083972/1‑100                                                                       GGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGC                                  >  1:26236/1‑100                                                                       GGCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGC                                  >  1:85907/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTGCGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCGCCGC                                  >  2:3801130/1‑99                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  1:972479/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  2:1271959/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  1:4085551/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  1:3777738/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  1:3728140/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCG                                 >  1:3722829/1‑100                                                                        GCCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGAAGTTGGCGCAGAATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGC                                  >  1:1392036/1‑99                                                                         CCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGA                                >  1:786142/1‑100                                                                         CCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGA                                >  1:519211/1‑100                                                                         CCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGA                                >  1:3052505/1‑100                                                                         CCCGAAATGACGCTTTAGCGTCGCATCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGA                                >  1:1889483/1‑100                                                                                                  TCGGGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTT       <  1:4034569/100‑1                                                                                                     GGCCTACGTTGAACATGTGCCAGTCGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    >  2:1807316/1‑100                                                                                                     GGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    <  2:2902730/100‑1                                                                                                     GGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    <  2:3044846/100‑1                                                                                                     GGCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    <  1:1632919/100‑1                                                                                                     GGCCTACGTCGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    <  2:310257/100‑1                                                                                                      GCCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAA    >  1:328743/1‑99                                                                                                       CCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAATT  >  1:2157283/1‑100                                                                                                       CCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAATT  <  2:599128/100‑1                                                                                                                                                                                                            TATCGCGGGGAAACGAACCGAGGATTTGACAAAGCAATGCTGCGCCAACGTCTGGCACATGTTCAACGTAGGCCCGAAATGACGCTTTAGCGTCGCATCGGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3546324‑3546222 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcgggcCTACGTTGAACATGTGCCAGACGTTGGCGCAGCATTGCTTTGTCAAATCCTCGGTTCGTTTCCCCGCGATAATATGACCAACCTCTCATAATTTAAATT  >  NC_000913/3546254‑3546352

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.