New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 581288 =99 (0.960)12 (0.150) 3/38 NT 17.1% coding (1672/3144 nt) cusA copper/silver efflux system, membrane component
?REL606 1956195 = 38 (0.470)coding (420/579 nt) flhC DNA‑binding transcriptional dual regulator with FlhD

CAAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/581326‑581288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCA  >  REL606/1956195‑1956228
                                                                         
CAAGTCGCCTTCATTGATCTGCGGTAAAAATTCCC                                        <  1:9344956/35‑1
CAAGTCGCCTTCATTGATCTGCGGTAAAAATTCCC                                        >  1:8813450/1‑35
CAAGTCGCCTTCATTGATCTGCGGTAAAAATTCCC                                        >  1:15138617/1‑35
CAAGTCGCATTCATTGATCTGCGGTAAAAATTCCC                                        <  1:9460740/35‑1
 AAGTCGCCTTCATTGATTTGCGGTAAAAATTCCCC                                       >  1:1423798/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:7795791/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       <  1:7636275/35‑1
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:2943919/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       <  1:20520015/35‑1
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       <  1:19135314/35‑1
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:18187393/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       <  1:1661/35‑1
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       <  1:1498418/35‑1
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:14858856/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:14065371/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:13701629/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:11570140/1‑35
 AAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCC                                       >  1:11928556/1‑35
  AGTCGCCTTCATTGATTTGCGGTAAAAATTCCCCG                                      >  1:1997372/1‑35
  AGTCGCCTTCATTGATCTGCTGTAAAAATTCCCCG                                      >  1:10662114/1‑35
  AGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCG                                      <  1:15674068/35‑1
  AGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCG                                      >  1:20147151/1‑35
  AGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCG                                      >  1:8338188/1‑35
  AGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCG                                      <  1:17823251/35‑1
  AGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCG                                      >  1:12004508/1‑35
   GTCGCCTTCATTGATCTGCGGTAAAAATTCCCCGC                                     <  1:13068005/35‑1
    TCGCCTTCATTGATCTGCGGTAAAAATTCCCCGCC                                    >  1:2026986/1‑35
    TCGCCTTCATTGATCTGCGGTAAAAATTCCCCGCC                                    >  1:1120311/1‑35
    TCGCCTTCATTGATCTGCGGTAAAAATTCCCCGCC                                    >  1:17851133/1‑35
    TCGCCTTCATTGATATGCGGTAAAAATTCCCCGCC                                    <  1:7701130/35‑1
                      taaAAAAATTCCCCGCCGCAGCAGTTGCAGCTGGA                  <  1:1682463/32‑1
                       aaAAAAATTCCCCGCCGCAGCAGTTGCAGCTGGAA                 <  1:13300431/33‑1
                        aAAAAATTCCCCGCCGCAGCAGTTGCAGCTGGAAA                <  1:14807839/34‑1
                        aAAAAAATCCCCGCCGCAGCAGTTGCAGCTGGAAA                <  1:14808121/34‑1
                         AAAAATTCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:16950389/35‑1
                         AAAAATTCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:4189421/35‑1
                         AAAAAGTCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:19772725/35‑1
                         AAAAAGTCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:10757383/35‑1
                         AAAAAATCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:20053617/35‑1
                         AAAAAATCCCCGCCGCAGCAGTTGCAGCTGGAAAG               <  1:4444775/35‑1
                          AAAATTCCCCGCCGCAGCAGTTGCAGCTGGAAAGT              <  1:6117308/35‑1
                           AAATTGCCCGCCGCAGCAGTTGCAGCTGGAAAGTT             <  1:1471769/35‑1
                            aaaTCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTG            <  1:16125289/32‑1
                             ATTCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGC           <  1:5927766/35‑1
                              tcCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCA          <  1:2736104/33‑1
                               tgCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAG         <  1:19759564/33‑1
                               gCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAG         <  1:1283865/34‑1
                               TCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAG         <  1:7749457/35‑1
                               TCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAG         <  1:10801265/35‑1
                               TCCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAG         <  1:13559617/35‑1
                                CCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGT        <  1:11704614/35‑1
                                CCCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGT        <  1:1275676/35‑1
                                 CCCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTA       <  1:3458871/35‑1
                                  CCGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAA      <  1:4660255/35‑1
                                   CGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAAT     <  1:6041142/35‑1
                                   CGCCGCAGCAGTTGCAGCTGGAAAGTTGCAGGAAa     >  1:6526368/1‑34
                                    GCCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATC    <  1:11826965/35‑1
                                     CCGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCC   <  1:6134207/35‑1
                                      CGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCA  <  1:3630984/35‑1
                                      CGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCA  <  1:237603/35‑1
                                                                         
CAAGTCGCCTTCATTGATCTGCGGTAAAAATTCCCCGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/581326‑581288
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccGCAGCAGTTGCAGCTGGAAAGTTGCAGTAATCCA  >  REL606/1956195‑1956228

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.