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

Only 100 of 114 total aligned reads displayed.

CTGATACAATCTTCACCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGAT  >  REL606/3487273‑3487341
                                  |                                  
cTGATACAATCTTCACCTCCGCGCAAAAAAGAACa                                    <  1:8836133/35‑1 (MQ=255)
cTGATACAATCTTCACCTCCGCGCAAAAAAGAACa                                    >  1:6574570/1‑35 (MQ=255)
cTGATACAATCTTCACCTCCGCGCAAAAAAGAACa                                    >  1:15625119/1‑35 (MQ=255)
 tGATACAATCTTCACCTCCGCGCAAAAAAGAACAg                                   >  1:17553612/1‑35 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  <  1:6155610/35‑1 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  <  1:5960495/35‑1 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  >  1:11897065/1‑35 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  >  1:4925647/1‑35 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  <  1:18583710/35‑1 (MQ=255)
  gATACAATCTTCACCTCCGCGCAAAAAAGAACAGc                                  >  1:19082025/1‑35 (MQ=255)
    tACAATCTTCACCTCCGCGCAAAAAAGAACAGCcg                                >  1:15149592/1‑35 (MQ=255)
     aCAATCTTCACCTCCGCGCAAAAAAGAACAGCcgc                               >  1:15971006/1‑35 (MQ=255)
     aCAATCTTCACCTCCGCGCAAAAAAGAACAGCcgc                               >  1:20296534/1‑35 (MQ=255)
      cAATCTTCACCTCCGCGCAAAAAAGAACAGCcgcg                              >  1:20112322/1‑35 (MQ=255)
      cAATCTTCACCTCCGCGCAAAAAAGAACAGCcgcg                              >  1:19239867/1‑35 (MQ=255)
      cAATCTTCACCTCCGCGCAAAAAAGAACAGCcgcg                              >  1:4552635/1‑35 (MQ=255)
      cAATCTTCACCTCCGCGCAAAAAAGAACAGCcgcg                              >  1:11118742/1‑35 (MQ=255)
       aaTCTTCACCTCCGCGCAAAAAAGAACAGCcgcgc                             >  1:4016331/1‑35 (MQ=255)
       aaTCTTCACCTCCGCGCAAAAAAGAACAGCcgcgc                             >  1:17030806/1‑35 (MQ=255)
        aTCTTCACCTCCGCGCAAAAAAGAACAGCcgcgcg                            >  1:6145851/1‑35 (MQ=255)
         tCTTCACCTCCGCGCAAAAAAGAACAGCCGCgcgg                           >  1:15449187/1‑35 (MQ=255)
         tCTTCACCTCCGCGCAAAAAAGAACAGCCGCgcgg                           >  1:9374517/1‑35 (MQ=255)
          cTTCACCTCCGCGCAAAAAAGAACAGCCGCgcggc                          >  1:2227809/1‑35 (MQ=255)
          cTTCACCTCCGCGCAAAAAAGAACAGCCGCgcggc                          >  1:14290613/1‑35 (MQ=255)
          cTTCACCTCCGCGCAAAAAAGAACAGCCGCgcggc                          >  1:17139602/1‑35 (MQ=255)
          cTTCACCTCCGCGCAAAAAAGAACAGCCGCgcggc                          >  1:5311723/1‑35 (MQ=255)
           ttCACCTCCGCGCAAAAAAGAACAGCCGCgcggcg                         >  1:734959/1‑35 (MQ=255)
           ttCACCTCCGCGCAAAAAAGAACAGCCGCgcggcg                         >  1:7074497/1‑35 (MQ=255)
           ttCACCTCCGCGCAAAAAAGAACAGCCGCgcggcg                         >  1:6617151/1‑35 (MQ=255)
           ttCACCTCCGCGCAAAAAAGAACAGCCGCgcggcg                         >  1:11154850/1‑35 (MQ=255)
            tCACCTCCGCGCAAAAAAGAACAGCCGCGCGgcgc                        >  1:4447246/1‑35 (MQ=255)
            tCACCTCCGCGCAAAAAAGAACAGCCGCGCGgcgc                        >  1:16198365/1‑35 (MQ=255)
            tCACCTCCGCGCAAAAAAGAACAGCCGCGCGgcgc                        >  1:2215889/1‑35 (MQ=255)
              aCCTCCGNGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:14641984/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:13659382/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:11398905/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:12560139/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:6818294/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:15626385/1‑35 (MQ=255)
              aCCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAg                      >  1:867393/1‑35 (MQ=255)
                 tCCGCGCAAAAAAGAACAGCCGCGCGGCGCAGGTg                   >  1:3526587/1‑35 (MQ=255)
                  ccGCGCAAAAAAGAACAGCCGCGCGGCGCAGGTGa                  >  1:19461352/1‑35 (MQ=255)
                   cacaaaaaaaaccccAGCCGCGCGGCGCAGGTGaa                 <  1:18923468‑M2/20‑1 (MQ=255)
                    gcgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAg                >  1:3272791/1‑35 (MQ=255)
                    gcgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAg                >  1:17511141/1‑35 (MQ=255)
                    gcgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAg                >  1:16828914/1‑35 (MQ=255)
                    gcaaaaaaaaccccAGCCGCGCGGCGCAGGTGAAg                <  1:8829321‑M2/21‑1 (MQ=255)
                     cgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGt               >  1:10926143/1‑35 (MQ=255)
                     cgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGt               >  1:13318485/1‑35 (MQ=255)
                     cgcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGt               >  1:14917989/1‑35 (MQ=255)
                     caaaaaaacccccAGCCGCGCGGCGCAGGTGAAGt               <  1:16884076‑M2/22‑1 (MQ=255)
                     caaaaaaacccccAGCCGCGCGGCGCAGGTGAAGt               <  1:6571056‑M2/22‑1 (MQ=255)
                     caaaaaaaaccccAGCCGCGCGGCGCAGGTGAAGt               <  1:18229389‑M2/22‑1 (MQ=255)
                      gcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTg              >  1:2173042/1‑35 (MQ=255)
                      gcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTg              >  1:8661171/1‑35 (MQ=255)
                      gcAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTg              >  1:6900128/1‑35 (MQ=255)
                      aaaaaaaaccccAGCCGCGCGGCGCAGGTGAAGTg              <  1:4902896‑M2/23‑1 (MQ=255)
                      aaaaaaaaccccAGCCGCGCGGCGCAGGTGAAGTg              <  1:8983058‑M2/23‑1 (MQ=255)
                       cAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGa             >  1:20558076/1‑35 (MQ=255)
                       cAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGa             >  1:290590/1‑35 (MQ=255)
                       cAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGa             >  1:3118826/1‑35 (MQ=255)
                       cAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGa             >  1:3802937/1‑35 (MQ=255)
                       aaaaaaaccccAGCCGCGCGGCGCAGGTGAAGTGa             <  1:5319413‑M2/24‑1 (MQ=255)
                        aaaaacccccAGCCGCGCGGCGCAGGTGAAGTGAc            <  1:8432807‑M2/25‑1 (MQ=255)
                        aaaaacccccAGCCGCGCGGCGCAGGTGAAGTGAc            <  1:6483821‑M2/25‑1 (MQ=255)
                        aaaaaaGAACAGCCGCGCGGCGCAGGTGAAGTGAc            >  1:17928695/1‑35 (MQ=255)
                        aaaaaaGAACAGCCGCGCGGCGCAGGTGAAGTGAc            >  1:1298849/1‑35 (MQ=255)
                         aaaacccccAGCCGCGCGGCGCAGGTGAAGTGACg           <  1:13035882‑M2/26‑1 (MQ=255)
                         aaaaaGAACAGCCGCGCGGCGCAGGTGAAGTGACg           >  1:2257667/1‑35 (MQ=255)
                          aaaaGAACAGCTGCGCGGCGCAGGTGAAGTGACGa          >  1:10886032/1‑35 (MQ=255)
                          aaaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGa          >  1:4655858/1‑35 (MQ=255)
                          aaaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGa          >  1:8573460/1‑35 (MQ=255)
                          aaaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGa          >  1:812505/1‑35 (MQ=255)
                          aaaaGAACAGCCGCGCGGCGCAGGTGAAGTGAAGa          >  1:8837740/1‑35 (MQ=255)
                           aaaccccAGCCGCGCGGCGCAGGTGAAGTGACGAt         <  1:8622292‑M2/28‑1 (MQ=255)
                           aaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGAt         >  1:17489682/1‑35 (MQ=255)
                           aaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGAt         >  1:1618347/1‑35 (MQ=255)
                           aaaGAACAGCCGCGCGGCGCAGGTGAAGTGACGAt         >  1:8105279/1‑35 (MQ=255)
                            ccccccAGCCGCGCGGCGCAGGTGAAGTGACGAtt        <  1:8599492‑M2/29‑1 (MQ=255)
                            acccccAGCCGCGCGGCGCAGGTGAAGTGACGAtt        <  1:9172949‑M2/29‑1 (MQ=255)
                            aaGAACAGCCGCGCGGCGCAGGTGAAGTGACGAtt        >  1:16391500/1‑35 (MQ=255)
                             cccccAGCCGCGCGGCGCAGGTGAAGTGACGATTa       <  1:3616404‑M2/30‑1 (MQ=255)
                              gAACAGCCGCGCGGCGCAGGTGAAGTGACGATTAt      >  1:9243890/1‑35 (MQ=255)
                              gAACAGCCGCGCGGCGCAGGTGAAGTGACGATTAt      >  1:12516658/1‑35 (MQ=255)
                              ccccAGCCGCGCGGCGCAGGTGAAGTGACGATTAt      <  1:11496360‑M2/31‑1 (MQ=255)
                               cccAGCCGCGCGGCGCAGGTGAAGTGACGATTATc     <  1:2951344‑M2/32‑1 (MQ=255)
                               cccAGCCGCGCGGCGCAGGTGAAGTGACGATTATc     <  1:18316977‑M2/32‑1 (MQ=255)
                               aaCAGCCGCGCGGCGCAGGTGAAGTGACGATTATc     >  1:12469996/1‑35 (MQ=255)
                               aaCAGCCGCGCGGCGCAGGTGAAGTGACGATTATc     >  1:12445115/1‑35 (MQ=255)
                                ccAGCCGCGCGGCGCAGGTGAAGTGACGATTATCg    <  1:16706219‑M2/33‑1 (MQ=255)
                                aCAGCCGCGCGGCGCAGGTGAAGTGACGATTATCg    >  1:8202517/1‑35 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   <  1:10888846‑M2/34‑1 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   >  1:2755481‑M2/2‑35 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   <  1:8751886‑M2/34‑1 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   <  1:14111691‑M2/34‑1 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   <  1:16636240‑M2/34‑1 (MQ=255)
                                 cAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGa   <  1:13962886‑M2/34‑1 (MQ=255)
                                  aGCCGCGCGGCGCAGGTGAAGTGACGATTATCGAt  >  1:15300009/1‑35 (MQ=255)
                                  aGCCGCGCGGCGCAGGTGAAGTGACGATTATCGAt  <  1:15618867/35‑1 (MQ=255)
                                  aGCCGCGCGGCGCAGGTGAAGTGACGATTATCGAt  <  1:12700068/35‑1 (MQ=255)
                                  |                                  
CTGATACAATCTTCACCTCCGCGCAAAAAAGAACAGCCGCGCGGCGCAGGTGAAGTGACGATTATCGAT  >  REL606/3487273‑3487341

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ 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.