New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4295947	NA (NA)	29 (0.240)	9/164	NT	23.8%	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	101 (0.770)					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

TGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4295850‑4295947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  <  NC_000913/4295980‑4295875                                                                                                                                                                                                              TGCCGCGTCTTATCAAGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGC                                                                                                          <  2:3673065/100‑1  GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         >  2:2550451/1‑100  GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         <  2:2148957/100‑1  GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         >  2:199406/1‑100  GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCC                                                                                                         >  2:1676856/1‑100  GCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCGGATTTCGCGTGATTTTGTAGGTCGGATAAGGCGGTTATGCCGCATACGACATCAACG                                                                                                           >  1:475614/1‑98  GCCGCGTCGTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGC                                                                                                          <  2:1609061/99‑1   CCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCT                                                                                                        <  2:2884017/100‑1    CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       >  1:1430461/1‑100    CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       <  2:1214424/100‑1    CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTG                                                                                                       <  2:483923/100‑1     GCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGA                                                                                                      >  2:174117/1‑100      CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     <  1:961540/100‑1      CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     <  2:1021269/100‑1      CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     <  1:174117/100‑1      CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     <  1:1967646/100‑1        TCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAT                                                                                                     >  1:1412744/1‑98           TATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACAAGAACGCCTGAggc                                                                                                   >  1:1940344/1‑94           TATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTAGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGGCTGAT                                                                                                     >  1:1534941/1‑95              CAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCG                                                                                             >  1:1303242/1‑100              CAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCG                                                                                             >  1:1303356/1‑100                           GACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCAT                                                                                <  2:938208/100‑1                            ACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATC                                                                               <  2:1097961/100‑1                               tCGCAATAGTCTGATTTAGCGTCATTCTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGG                                                                            <  1:769492/99‑1                               GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCTGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGG                                                                            <  2:751898/100‑1                               GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGTGTCGCATCAGG                                                                            <  2:2617120/100‑1                               GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGG                                                                            <  2:2242322/100‑1                               GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGG                                                                            <  2:2659531/100‑1                                CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGC                                                                           <  2:1303248/100‑1                                CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGC                                                                           <  2:1303362/100‑1                                 GCAATAGCCTGATTTAGTGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCG                                                                          <  1:2209039/100‑1                                 GCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCG                                                                          <  1:3348137/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  2:2956728/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  2:2956593/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  2:2290108/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGT                                                                         <  2:863940/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGT                                                                         <  1:3442346/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGT                                                                         <  2:440450/100‑1                                  CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGT                                                                         <  2:1412750/100‑1                                   AATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATT                                                                        <  2:3435084/100‑1                                   AATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGT                                                                         <  2:1498781/99‑1                                   AATAGCCTGATTGAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGT                                                                         <  2:3088344/99‑1                                    ATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTG                                                                       <  1:374417/100‑1                                      AGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGA                                                                      <  2:1532301/99‑1                                       GCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATTGATG                                                                    <  1:33779/100‑1                                        CCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCATTGATGT                                                                   <  1:2867017/100‑1                                          TGATTTAGCGTGATTTTGTAGGTGGTATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATG                                                                    <  1:20821/97‑1                                                  CGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATAAGACGCGGCAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGC                                                         <  2:1972871/100‑1                                                                                                   GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCG        <  2:3552038/100‑1                                                                                                   GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCG        <  2:1950838/100‑1                                                                                                   GCCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCG        >  2:3064968/1‑100                                                                                                    CCTGATACGACGCGCTACGCATCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTAT            <  1:1094540/95‑1                                                                                                    CCTGATAAGCCGCGTCACGCGTCGCATCAGGCCTTGACGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGC         <  1:3338758/98‑1                                                                                                    CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGacaactgcac       >  1:601064/1‑90                                                                                                    CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       >  2:1430467/1‑100                                                                                                    CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       >  2:465380/1‑100                                                                                                    CCTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       >  2:1802151/1‑100                                                                                                    CCTGATAAGACGCGGTAAGCGTCGCATCAGGCATTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       <  1:2487166/100‑1                                                                                                     CTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCT      >  2:1656694/1‑100                                                                                                     CTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCT      >  1:1163285/1‑100                                                                                                     CTGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGC       <  1:2781727/99‑1                                                                                                      TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGgt      >  1:1506697/1‑97                                                                                                      TGATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTG     <  2:2635675/100‑1                                                                                                       GATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGT    >  2:1789202/1‑100                                                                                                       GATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGT    >  2:1756301/1‑100                                                                                                       GATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGT    >  1:3371566/1‑100                                                                                                       GATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGT    >  1:2083199/1‑100                                                                                                        ATAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTC   <  2:3363695/100‑1                                                                                                        ATAAGACGCCTTAAGCGCCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGC         <  1:3069581/94‑1                                                                                                         TAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGGCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  >  1:3520911/1‑100                                                                                                         TAAGACGCGTTAAGCGTCGCATCAGGCGTTGATGTCGGATGCGGCATAAACGCCTTATCCGACCTACAAAATCACGCTAAATCAGGCTATTGCGCTGTCT  >  2:2851177/1‑100                                                                                                                                                                                                              TGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4295850‑4295947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑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 < 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.