New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4295947	NA (NA)	22 (0.190)	9/164	NT	19.0%	noncoding (113/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites
	?	NC_000913	= 4295980	102 (0.830)					noncoding (146/600 nt)	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites	RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites

TTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4295849‑4295947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  <  NC_000913/4295980‑4295875                                                                                                                                                                                                               TTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACG                                                                                                           <  2:2071150/100‑1  TGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGC                                                                                                          <  1:3047017/100‑1   GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCTTCCGACATCAACGCC                                                                                                         >  2:3359438/1‑100   GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         >  2:156623/1‑100   GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         <  1:944707/100‑1   GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         <  2:3344996/100‑1    CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCT                                                                                                        >  1:3361207/1‑100    CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCT                                                                                                        >  1:2145375/1‑100    CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCT                                                                                                        <  2:2946169/100‑1    CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTAGTAGGTCGGATAAGGCGATTATGCCGCATCCGACATCAACGCCT                                                                                                        >  2:738740/1‑100    CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCCTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCT                                                                                                        <  1:2608303/100‑1     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  1:856963/1‑100     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       <  2:2145386/100‑1     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  1:859400/1‑100     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  2:871787/1‑100     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  1:1075148/1‑100     CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGC                                                                                                          >  1:2572319/1‑97      GCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGA                                                                                                      >  2:1418185/1‑100      GCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGACTTTGTATGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  1:906902/1‑99       CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     <  2:844958/100‑1         taTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAATGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       <  1:648614/94‑1                  GCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTATATGCCGCATCCGACATGAACGCCTGAggcgcgggt                                                                                             >  1:249246/1‑88                        GCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTC                                                                                    <  2:1064586/100‑1                           ccgatctGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCAACCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCA                                                                                 <  1:2105036/93‑1                                 CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGC                                                                           <  2:710314/100‑1                                 CGCAATAGCCTGATTTAGCGTGATTTTCTAGGTCGGATAAGGCGTTCAGGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGC                                                                           <  1:2987114/100‑1                                  GCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCAagatcgg                                                                          >  2:2105047/1‑93                                  GCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCG                                                                          <  2:2775977/100‑1                                  GCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCG                                                                          <  1:2845360/100‑1                                   CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  2:2729543/100‑1                                   CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  1:2482545/100‑1                                   CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCat                                                                         <  2:910491/100‑3                                    AATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTT                                                                        <  1:1768128/100‑1                                     ATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  1:2922262/98‑1                                      TAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATTGA                                                                      <  2:661359/100‑1                                       AGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGAT                                                                     <  2:1400246/100‑1                                        GCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATG                                                                    <  2:2977399/100‑1                                        GCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATTGATG                                                                    <  2:130959/100‑1                                           TGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCG                                                                 <  2:1657987/100‑1                                           TGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATTGATGTCG                                                                 <  2:2784425/100‑1                                           TGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGTTGATGTCG                                                                 <  1:1247073/100‑1                                            GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTCTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGTGTTCATGTCGG                                                                <  1:1799958/100‑1                                             ATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGTTGATGTCGGA                                                               <  2:464175/100‑1                                                    GTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCA                                                        <  2:536280/100‑1                                                                                                    GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCG        >  1:3286889/1‑100                                                                                                    GCCTGATAAGACGCGTCAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGC               <  1:2060201/93‑1                                                                                                     CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       <  2:458887/100‑1                                                                                                     CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       >  1:2674214/1‑100                                                                                                     CCTGATAAGACGCGGTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       <  1:532035/100‑1                                                                                                       TGATACGACGCGTAAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     <  2:2987130/100‑1                                                                                                       TGATAAGACGCGTTAAGCGTCGCATCATGCGTTGATGTCGGATGCGGGATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     <  2:235927/100‑1                                                                                                       TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     <  1:2660845/100‑1                                                                                                       TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     >  1:1925084/1‑100                                                                                                       TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCT      >  2:895475/1‑99                                                                                                       TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       >  1:455045/1‑98                                                                                                        GATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     <  1:798941/99‑1                                                                                                         ATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTC   <  1:1470088/100‑1                                                                                                          TAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  <  2:277975/100‑1                                                                                                                                                                                                               TTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4295849‑4295947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  <  NC_000913/4295980‑4295875

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.