New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2511352 =	NA (NA)	11 (0.080)	6/164	NT	NA	noncoding (1/88 nt)	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP172 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	= 2662541	NA (NA)					noncoding (233/266 nt)	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences	REP184 (repetitive extragenic palindromic) element; contains 6 REP sequences

GTCGCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2511457‑2511352 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAGTG  <  NC_000913/2662541‑2662443                                                                                                                                                                                                                GTCGCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCA                                                                                                           >  1:539372/1‑100   CGCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATC                                                                                                         >  2:128153/1‑100    GCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCA                                                                                                        >  1:1243204/1‑100    GCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCA                                                                                                        >  2:1159852/1‑100    GCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCA                                                                                                        >  2:2782782/1‑100    GCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCA                                                                                                        >  1:4136237/1‑100     CATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAG                                                                                                       <  2:3357662/100‑1     CATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAG                                                                                                       <  1:2718857/100‑1      ATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAGG                                                                                                      >  1:358403/1‑100      ATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAG                                                                                                       <  1:2274362/99‑1      ATCTGGCACGATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCA                                                                                                        <  1:2463179/98‑1       TCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGGTAAGACGCACTA‑GCGTCGCATCAGGC                                                                                                     <  2:2673137/100‑1       TCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAGGC                                                                                                     <  1:1934465/100‑1        CTGGCACTATAGGCGGGCGCGGCGTACTCGCCTGATCCGCCCAACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAGG                                                                                                      <  1:3632693/98‑1                                                                     ttccgatctTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCC                                        <  1:3428347/91‑1                                                                     cTGTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCC                                        >  2:261807/2‑100                                                                       GTAGGCCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATACGACAGCCGTTGCCTG                                      >  1:1720664/1‑100                                                                          GGCCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATG                                   >  2:4277968/1‑100                                                                           GCCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGC                                  >  1:3298601/1‑100                                                                           GCCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCATTGCCTGATGC                                  >  2:3017590/1‑100                                                                            CCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCG                                 >  2:336884/1‑100                                                                            CCTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCG                                 >  2:2704416/1‑100                                                                             CTGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGA                                >  2:3009304/1‑100                                                                              TGATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCAGATcggaa                               >  2:3428365/1‑95                                                                               GATAAGACGCATTACGCGTCGCATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACG                              >  1:1147282/1‑100                                                                                                     ATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCT        <  2:3021203/100‑1                                                                                                     ATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCT        >  2:3791121/1‑100                                                                                                     ATCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCT        <  2:2083389/100‑1                                                                                                      TCAGGCGTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTA       <  2:3057038/100‑1                                                                                                      TCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTA       <  2:2232986/100‑1                                                                                                      TCAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGCGTTGCGTCgggccag            >  1:852896/1‑88                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  2:4356136/1‑100                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  2:3146125/1‑100                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  2:2939720/1‑100                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      <  2:2935922/100‑1                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  2:1709225/1‑100                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  2:2568942/1‑100                                                                                                       CAGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGACGCATCCGACAGCCGTTGCCTGATGCGACGCGGAATGCGTCTTATCAGGCCTAC      >  1:22647/1‑100                                                                                                       CAGGCCTACAGAGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAC      >  1:2304330/1‑100                                                                                                        AGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTAta     <  2:2984620/100‑3                                                                                                        AGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACA     <  2:1046233/100‑1                                                                                                        AGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACA     >  2:3060761/1‑100                                                                                                        AGGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACA     >  2:3318196/1‑100                                                                                                         gaCCTACAGTTAACAGAACCGAAGGTCGGAAAAGGCGTTCACGCCGCATCCTACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    <  1:2484117/98‑1                                                                                                         GGCCTACGGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    >  2:2302698/1‑100                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    <  2:3521761/100‑1                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    >  1:2796931/1‑100                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    >  2:2111620/1‑100                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    >  1:3556815/1‑100                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    >  1:801791/1‑100                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    <  2:1378107/100‑1                                                                                                         GGCCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    <  2:1983472/100‑1                                                                                                         GGCCTACACTGAACAGATCCGTAGCTCGTATAAGGCGTTCCCGCCGCAACCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAG    <  1:2084891/100‑1                                                                                                           CCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAGTG  >  2:314827/1‑100                                                                                                           CCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAGTG  <  2:2923944/100‑1                                                                                                           CCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCCTATCAGGCCTACAGcg  >  2:3312174/1‑98                                                                                                           CCTACAGTGAACAGAACCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAGTG  >  1:4039014/1‑100                                                                                                                                                                                                                GTCGCATCTGGCACTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACGCGTTAAAGAGCCGGTTTGTAGGCCTGATAAGACGCACTA‑GCGTCGCATCAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2511457‑2511352 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atcaggcCTACAGTGAACAGAACCGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCCTACAGTG  <  NC_000913/2662541‑2662443

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.