New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 349938	NA (NA)	18 (0.150)	7/164	NT	NA	noncoding (334/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences
	?	NC_000913	= 349969	NA (NA)					noncoding (365/365 nt)	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences	REP25 (repetitive extragenic palindromic) element; contains 8 REP sequences

CTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGgtcggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/349840‑349938 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GTCGGATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGATGCGA  <  NC_000913/349969‑349866                                                                                                                                                                                                             CTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGGCGCGACTTATCAGGCCTACGGGGGGGACTGGACTGGAGG                                                                                                         >  1:2721689/1‑100   GTAGGTCGGATAAGACGGATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTC                                                                                                       >  1:1250455/1‑100     AGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGG                                                                                                     <  2:2515128/100‑1     AGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGG                                                                                                     <  1:435978/100‑1      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGA                                                                                                    >  2:701587/1‑100      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGA                                                                                                    <  1:1635122/100‑1      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGA                                                                                                    >  1:1823582/1‑100      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGA                                                                                                    >  2:2524512/1‑100      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCG                                                                                                      <  1:1613909/98‑1      GGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCATGATGCGCCGCTGACGCGACTTATCAGGCCTACGGAGTGGACTGAACTGTAGGTCGGA                                                                                                    >  1:1948702/1‑100        TCGGATAAGACGCATCGCGTCGCACGCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGG                                                                                                     <  1:181636/97‑1                    CATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCG                                                                                      >  1:668556/1‑100                            CGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCC                                                                              <  1:1557796/100‑1                            CGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCC                                                                              <  2:992579/100‑1                            CGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCC                                                                              <  2:668561/100‑1                            CGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCC                                                                              <  2:636569/100‑1                            CGCATCCGACAACCGAGGCCTGATGCGCCGGTGACGCGACTTATCAGGCCTACGGGGTGAACTGATCTGTAGGTCGGATGCGACGCTATGCGTCTTATCC                                                                              <  1:3096376/100‑1                             GCATCCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCG                                                                             <  2:498058/100‑1                             GCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCG                                                                             <  2:3561341/100‑1                             GCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGAGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCG                                                                             <  1:2050963/100‑1                             GCATCCGACAACCGATGCCTCATGCGCCGTTGACGCGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATC                                                                               <  1:2490636/98‑1                              CATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGA                                                                            <  2:1383723/100‑1                                TCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGACC                                                                          <  1:162219/100‑1                                TCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGACC                                                                          <  1:1450592/100‑1                                 CCGACAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCTACCT                                                                         <  2:1868566/100‑1                                 CCGACAACCGATGCCTGATGCGCCGCTGACGGGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGACC                                                                          <  2:2000727/99‑1                                 CCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGACCT                                                                         <  2:2713245/100‑1                                     CAACCGATGCCTGATGCGCCGCTGACGTGACTTATCAGGCCTACGGGGTGCACTGAACTGTAGGTCGGATGCGACGCTATGCGTCTTATCCGACCTACAG                                                                     <  1:3465700/100‑1                                                               GCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAA                                           >  1:2980077/1‑100                                                                                                    GTCGGATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGAT      <  2:687194/100‑1                                                                                                    GTCGGATAAGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGAT      >  1:87492/1‑100                                                                                                     TCGGATGCGACGCTATGCGTCTTATCCGTCCTACAGTTCAGTTCACTCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGA       <  1:2306565/98‑1                                                                                                      CGGATGCGACGCTATGCGTCATATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGATGC    >  1:2254648/1‑100                                                                                                       GGATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGTGGCGCATCAGGCATCGGTTGTCGGATGCG   >  2:2295711/1‑100                                                                                                       GGATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGATGC    <  1:211530/99‑1                                                                                                         ATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGATATCGGATGCGA  >  1:1134295/1‑99                                                                                                                                                                                                             CTGTAGGTCGGATAAGACGCATAGCGTCGCATCCGACAACCGATGCCTGATGCGCCGCTGACGCGACTTATCAGGCCTACGGGGTGAACTGAACTGTAGgtcggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/349840‑349938 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GTCGGATGCGACGCTATGCGTCTTATCCGACCTACAGTTCAGTTCACCCCGTAGGCCTGATAAGTCGCGTCAGCGGCGCATCAGGCATCGGTTGTCGGATGCGA  <  NC_000913/349969‑349866

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.