New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4614607	NA (NA)	12 (0.090)	9/164	NT	NA	noncoding (351/388 nt)	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences
	?	NC_000913	= 4614640	NA (NA)					noncoding (384/388 nt)	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences

CTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4614509‑4614607 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATG  <  NC_000913/4614640‑4614535                                                                                                                                                                                                               CTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATG                                                                                                           >  1:631808/1‑100   GATGCGACGCTTGTCGCGTCTTATCATGCCTACAGGATTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCC                                                                                                         <  2:2671635/100‑1    ATGCGACGCCTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATG                                                                                                           <  1:2845107/97‑1     TGCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTG                                                                                                       <  2:3711250/100‑1      GCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCTGCATCCGGCAGTTGGCGCACAATGCCT                                                                                                        >  1:2325516/1‑98      GCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGAGCACAATGCCTG                                                                                                       <  2:2493126/99‑1       CGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     <  1:2767147/100‑1       CGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     >  1:787132/1‑100       CGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     <  2:1691019/100‑1       CGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     >  2:3216878/1‑100       CGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     <  2:3742773/100‑1        gtCGCATGGCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     <  1:2723972/97‑1        GACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGAT                                                                                                     >  1:3549073/1‑99          CGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTG                                                                                                       <  2:730599/95‑1                         ATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGAGACGCGACAAGCGTCG                                                                                   <  1:1813572/100‑1                                CTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGG                                                                            <  1:2752729/100‑1                                 TACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGC                                                                           <  2:3208404/100‑1                                 TACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGC                                                                           <  1:2081725/100‑1                                   CAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCAT                                                                         <  1:2468698/100‑1                                    AGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATT                                                                        <  2:921033/100‑1                                     GGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGGCGCGTCAAGCGTCGCATCAGGCATTG                                                                       >  2:2936673/1‑100                                     GGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTG                                                                       <  1:955389/100‑1                                       ttcGTGCCCGACCGTCGTCCGGTCAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGC                                                                           <  1:597797/91‑1                                         TGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCG                                                                   <  2:3509188/100‑1                                                                  GCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATGCCTGATAAGGCGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACG                                          <  1:2936655/100‑1                                                                                             GCACAATGCCTGATGCGACGCTTGACGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGG                    >  1:1413482/1‑95                                                                                                     CCTGATGCGACGCGTCACGCGTCTTATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAG       <  1:921028/100‑1                                                                                                     CCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACATACCTGTAG       >  1:2798779/1‑100                                                                                                     CCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTA        >  1:234778/1‑99                                                                                                      CTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGG      <  2:1427855/100‑1                                                                                                      CTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGG      <  1:2950621/100‑1                                                                                                      CTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGG      <  1:2273182/100‑1                                                                                                      CTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGG      >  1:623232/1‑100                                                                                                       TGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGC     <  2:889616/100‑1                                                                                                       TGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCAGCGTGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGC     <  1:3678417/100‑1                                                                                                        GATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCA    <  1:2942653/100‑1                                                                                                        GATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCA    <  2:3286547/100‑1                                                                                                        GATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCA    <  1:2943649/100‑1                                                                                                         ATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCAT   <  2:3576579/100‑1                                                                                                         ATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCAT   >  2:2404826/1‑100                                                                                                         ATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCAT   <  2:1316148/100‑1                                                                                                          TAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATG  >  2:1945852/1‑100                                                                                                          TAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATG  <  1:13763/100‑1                                                                                                                                                                                                               CTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCAGTTGGCGCACAATgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4614509‑4614607 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGCGAACGCCTTATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATG  <  NC_000913/4614640‑4614535

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