New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? AM260480 251597 =9 (0.290)3 (0.110) 3/190 2.5 21.3% coding (497/1023 nt) h16_B0225 Integrase/recombinase protein
?AM260480 251666 = 14 (0.500)coding (566/1023 nt) h16_B0225 Integrase/recombinase protein

CCGTTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AM260480/251735‑251597
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcgggcgcTGCGGGTCGATGCCATCGAAGCCGGCGCCCCCGGCCGGATGGCGCTGCGCATGGTCCGCGCGGACAACGGCCGAGCCTATACCGTGCCGCTGTTCAGCCTGGCCCATGCGCCGC  >  AM260480/251666‑251779
                                                                                                                                                                                                                                                             
CCGTTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCG                                                                                                                         <  2:867406/134‑1
  GTTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGG                                                                                                                       <  1:20478/134‑1
   TTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGC                                                                                                                      >  1:1116447/1‑134
   TTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCG                                                                                                                           <  1:1148506/129‑1
   TTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCG                                                                                                                           >  2:1148506/1‑129
                             CATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGC                                                                                                                      >  1:172994/1‑108
                             CATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGC                                                                                                                      <  2:172994/108‑1
                                                 CTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGG                                                                                                                       <  1:752438/87‑1
                                                 CTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGG                                                                                                                       >  2:752438/1‑87
                                                                                 TCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGG                                                                                                                       <  1:593457/55‑1
                                                                                 TCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGG                                                                                                                       >  2:593457/1‑55
                                                                                                 CGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGCGCTGCGGGTCGATGCCATCGAAGCCGGCGCCC                                                                                      >  1:93204/1‑72
                                                                                                 CGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGCGCTGCGGGTCGATGCCATCGAAGCCGGCGCCC                                                                                      <  2:93204/72‑1
                                                                                                                       CAGGGCCACATCGCGGGCGCTGCGGGTCGATGCCATCGAAGCCGGCGCCCCCGGCCGGATGGCGCTGCGCATGGTCCGCGCGGACAACGGCCGAGCCTATACCGTGCCGCTGTTCAGCCTGGCCCATGCGCCGC  >  1:727667/1‑134
                                                                                                                                          CTGCGGGTCGATGCCATCGAAGCCGGCGCCCCCGGCCGGATGGCGCTGCGCATGGTCCGCGCGGACAA                                                 <  1:793658/68‑1
                                                                                                                                          CTGCGGGTCGATGCCATCGAAGCCGGCGCCCCCGGCCGGATGGCGCTGCGCATGGTCCGCGCGGACAA                                                 >  2:793658/1‑68
                                                                                                                                                                                                                                                             
CCGTTGTCCGCGCGGACCATGCGCAGCGCCATCCGGCCGGGGGCGCCGGCTTCGATGGCATCGACCCGCAGCGCCCGCGCTTCGCCTACCTTCAGGCCGCCGCCGAGCAGCACCGCCAGCAGGGCCACATCGCGGGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AM260480/251735‑251597
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcgggcgcTGCGGGTCGATGCCATCGAAGCCGGCGCCCCCGGCCGGATGGCGCTGCGCATGGTCCGCGCGGACAACGGCCGAGCCTATACCGTGCCGCTGTTCAGCCTGGCCCATGCGCCGC  >  AM260480/251666‑251779

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.