New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 = 1183967102 (0.990)15 (0.150) 4/46 NT 15.2% intergenic (+43/+40) ycfR/ycfS hypothetical protein/hypothetical protein
?REL606 = 4549416 69 (0.700)coding (18/1233 nt) yjiO multidrug efflux system protein

CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1183933‑1183967
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cCCGCCATGCCGCCACGCTGTTTTTCCCGATGGCG  <  REL606/4549416‑4549383
                                                                     
ctTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    <  1:14463684/33‑1
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    <  1:7340627/35‑1
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    <  1:14767608/35‑1
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    >  1:13658258/1‑35
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    <  1:12046307/35‑1
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    >  1:11554786/1‑35
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC                                    >  1:11333471/1‑35
                      tttTTTTTTCCCCCCGCCATGCCGCCACGCTGTTT              <  1:12292925/32‑1
                       gcTTTTTTCCCCCCGCCATGCCGCCACGCTGTTTT             <  1:1760127/33‑1
                         TTTTTTTCCCCCGCCATGCCGCCACGCTGTTTTTC           <  1:6746825/35‑1
                         TTTTTTTCCCCCGCCATGCCGCCACGCTGTTTTTC           <  1:15658226/35‑1
                         TTTTTTCCCCCCGCCATGCCGCCACGCTGTTTTTC           <  1:1288440/35‑1
                         TTTTTTCCCCCCGCCATGCCGCCACGCTGTTTTTC           <  1:8198188/35‑1
                          TTTTTTCCCCCGCCATGCCGCCACGCTGTTTTTCC          <  1:17518976/35‑1
                          TTTTTCCCCCCGCCATGCCGCCACGCTGTTTTTCC          <  1:2945115/35‑1
                           TTTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCC         <  1:18549360/35‑1
                           TTTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCC         <  1:12979548/35‑1
                           TTTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCC         <  1:16269/35‑1
                           TTTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCC         <  1:16185623/35‑1
                           TTTTCCCCCCGCCATGCCGCCACGCTGTTTTTCCC         <  1:4589606/35‑1
                            TTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCCG        <  1:11305994/35‑1
                            TTTTCCCCCGCCATGCCGCCACGCTGTTTTTCCCG        <  1:12370689/35‑1
                             tttCCCCCGCCATGCCGCCACGCTGTTTTTCCCGA       <  1:7759203/32‑1
                             tttCCCCCGCCATGCCGCCACGCTGTTTTTCCCGA       <  1:9421530/32‑1
                             TTCCCCCCGCCATGCCGCAACGCTGTTTTTCCCGA       <  1:9448927/35‑1
                              TCCCCCCGCCATGCCGCCACGCTGTTTTTCCCGAT      <  1:2734175/35‑1
                              TCCCCCCGCCATGCCGCCACGCTGTTTTTCCCGAT      <  1:11239219/35‑1
                              TCCCCCCGCCATGCCGCCACGCTGTTTTTCCCGAT      <  1:11840345/35‑1
                                CCCCCGCCATGCCGCCACGCTGTTTTTCCCGATGG    <  1:20451367/35‑1
                                CCCCCGCCATGCCGCCACGCTGTTTTTCCCGATGG    <  1:13132157/35‑1
                                CCCCCCCCATGCCGCCACGCTGTTTTTCCCGATGG    <  1:10621928/35‑1
                                 CCCCGCCATGCCGCCACGCTGTTTTTCCCGATGGC   <  1:8090966/35‑1
                                 CCCCGCCATGCCGCCACGCTGTTTTTCCCGATGGC   <  1:12102784/35‑1
                                  CCCGCCATGCCGCCACGCTGTTTTTCCCGATGGCG  >  1:15102925/1‑35
                                  CCCGCCATGCCGCCACGCTGTTTTTCCCGATGGCG  >  1:14222808/1‑35
                                                                     
CCTCATTAATGCCTGCTACTGCTGATTTTTTCCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1183933‑1183967
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cCCGCCATGCCGCCACGCTGTTTTTCCCGATGGCG  <  REL606/4549416‑4549383

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ 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.