New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 = 1036071104 (1.010)13 (0.130) 7/46 NT 13.9% intergenic (+43/+33) ycbG/ompA hypothetical protein/outer membrane protein A (3a;II*;G;d)
?REL606 3487307 = 61 (0.620)coding (440/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression

AGTCAGTTCAATTTACTAAAGGCAAAAAAAACCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1036037‑1036071
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  >  REL606/3487307‑3487340
                                                                     
AGTCAGTTCAATTTACTAAAGGCAAAAAAAACCCC                                    >  1:4581651/1‑35
AGTCAGTTCAATTTACTAAAGGCAAAAAAAACCCC                                    <  1:19956978/35‑1
AGTCAGTTCAATTTACTAAAGGCAAAAAAAACCCC                                    <  1:16973270/35‑1
AGTAAGTTCAATTTACTAAAGGCAAAAAAAACCCC                                    <  1:20563512/35‑1
                    caCAAAAAAAACCCCAGCCGCGCGGCGCAGGTGAA                <  1:18923468/33‑1
                     GCAAAAAAAACCCCAGCCGCGCGGCGCAGGTGAAG               <  1:8829321/35‑1
                      CAAAAAAACCCCCAGCCGCGCGGCGCAGGTGAAGT              <  1:16884076/35‑1
                      CAAAAAAACCCCCAGCCGCGCGGCGCAGGTGAAGT              <  1:6571056/35‑1
                      CAAAAAAAACCCCAGCCGCGCGGCGCAGGTGAAGT              <  1:8264588/35‑1
                      CAAAAAAAACCCCAGCCGCGCGGCGCAGGTGAAGT              <  1:18229389/35‑1
                       AAAAAAAACCCCAGCCGCGCGGCGCAGGTGAAGTG             <  1:8983058/35‑1
                       AAAAAAAACCCCAGCCGCGCGGCGCAGGTGAAGTG             <  1:4902896/35‑1
                        AAAAAAACCCCAGCCGCGCGGCGCAGGTGAAGTGA            <  1:5319413/35‑1
                         AAAAACCCCCAGCCGCGCGGCGCAGGTGAAGTGAC           <  1:8432807/35‑1
                         AAAAACCCCCAGCCGCGCGGCGCAGGTGAAGTGAC           <  1:6483821/35‑1
                          AAAACCCCCAGCCGCGCGGCGCAGGTGAAGTGACG          <  1:13035882/35‑1
                            AAACCCCAGCCGCGCGGCGCAGGTGAAGTGACGAT        <  1:8622292/35‑1
                             ccCCCCAGCCGCGCGGCGCAGGTGAAGTGACGATT       <  1:8599492/33‑1
                             acCCCCAGCCGCGCGGCGCAGGTGAAGTGACGATT       <  1:9172949/33‑1
                             acCCCCAGCCGCGCGGCGCAGGTGAAGTGACGATT       <  1:1599653/33‑1
                              cCCCCAGCCGCGCGGCGCAGGTGAAGTGACGATTA      <  1:3616404/34‑1
                               CCCCAGCCGCGCGGCGCAGGTGAAGTGACGATTAT     <  1:11496360/35‑1
                                CCCAGCCGCGCGGCGCAGGTGAAGTGACGATTATC    <  1:2951344/35‑1
                                CCCAGCCGCGCGGCGCAGGTGAAGTGACGATTATC    <  1:18316977/35‑1
                                CCCAGCCGCGCGGCGCAGGTGAAGTGACGATTATC    <  1:15084078/35‑1
                                 CCAGCCGCGCGGCGCAGGTGAAGTGACGATTATCG   <  1:16706219/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  >  1:2755481/1‑35
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:16967824/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:16636240/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:14111691/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:8751886/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:13962886/35‑1
                                  CAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  <  1:10888846/35‑1
                                                                     
AGTCAGTTCAATTTACTAAAGGCAAAAAAAACCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  REL606/1036037‑1036071
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGA  >  REL606/3487307‑3487340

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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.