New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1204666 =70 (0.680)9 (0.120) 4/36 NT 11.7% coding (481/1461 nt) phoQ sensory histidine kinase in two‑compoent regulatory system with PhoP
?REL606 3975303 = 83 (1.080)coding (677/801 nt) yigL predicted hydrolase

Only 100 of 155 total aligned reads displayed.

TTTGGCATTCGCGATGTTGCCGGGTAGACGTTTACCGCCACCGAGTGGGTCATCTCCGCGTCGTCGTCA  >  REL606/1204632‑1204700
                                  |                                  
tttGGCATTCGCGATGTTGCCGGGTAGACGTTTAc                                    >  1:9929786/1‑35 (MQ=255)
tttGGCATTCGCGATGTTGCCGGGTAGACGTTTAc                                    <  1:12866338/35‑1 (MQ=255)
cgctggtgcgcactgcccataatgcagcctttccc                                    <  1:20255355‑M1/1‑1 (MQ=255)
cgctggtgcgcactgcccataatgcagcctttccc                                    <  1:14548721‑M1/1‑1 (MQ=255)
 ttGGCATTCGCGATGTTGCCGGGTAGACGTTTAcc                                   >  1:6401995/1‑35 (MQ=255)
 ttGGCATTCGCGATGTTGCCGGGTAGACGTTTAcc                                   >  1:2486086/1‑35 (MQ=255)
 gctggtgcgcactgcccataatgcagcctttcccc                                   <  1:19891746‑M1/2‑1 (MQ=255)
 gctggtgcgcactgcccataatgcagcctttcccc                                   >  1:13849343‑M1/34‑35 (MQ=255)
 gctggtgcgcactgcccataatgcagcctttcccc                                   <  1:15441257‑M1/2‑1 (MQ=255)
 gctggtgcgcactgcccataatgcagcctttcccc                                   >  1:16020055‑M1/34‑35 (MQ=255)
  tGGCATTCGCGATGTTGCCGGGTAGACGTTTACCg                                  <  1:15831179/35‑1 (MQ=255)
  tGGCATTCGCGATGTTGCCGGGTAGACGTTTACCg                                  <  1:12119056/35‑1 (MQ=255)
  tGGCATTCGCGATGTTGCCGGGTAGACGTTTACCg                                  <  1:20382680/35‑1 (MQ=255)
  tGGCATTCGCGATGTTGCCGGGTAGACGTTTACCg                                  >  1:16696313/1‑35 (MQ=255)
  ctggtgcgccctgcccataatgcagcctttccCCg                                  >  1:16935372‑M1/33‑35 (MQ=255)
  ctggtgcgccctgcccataatgcagcctttccCCg                                  >  1:15502400‑M1/33‑35 (MQ=255)
  ctggtgcgcactgcccataatgcagcctttccCCg                                  <  1:10934193‑M1/3‑1 (MQ=255)
  ctggtgcgcactgcccataatgcagcctttccCCg                                  >  1:3327994‑M1/33‑35 (MQ=255)
  ctggtgcccactgcccataatgcagcctttccCCg                                  >  1:1804263‑M1/33‑35 (MQ=255)
   tggtgcgcactgcccataatgcagcctttccCCGc                                 <  1:18292087‑M1/4‑1 (MQ=255)
   tggtgcgcactgcccataatgcagcctttccCCGc                                 <  1:5235670‑M1/4‑1 (MQ=255)
   tggtgcgcactgcccataatgcagcctttccCCGc                                 <  1:17803131‑M1/4‑1 (MQ=255)
   ggCATTCGCGATGTTGCCGGGTAGACGTTTACCGc                                 <  1:745498/35‑1 (MQ=255)
   ggCATTCGCGATGTTGCCGGGTAGACGTTTACCGc                                 <  1:2794168/35‑1 (MQ=255)
    gCATTCGCGATGTTGCCGGGTAGACGTTTACCGca                                >  1:890897/1‑34 (MQ=255)
      aTTCGCGATGTTGCCGGGTAGACGTTTACCGCCAc                              >  1:13464441/1‑35 (MQ=255)
      aTTCGCGATGTTGCCGGGTAGACGTTTACCCccca                              >  1:16985751/1‑33 (MQ=38)
         cgcgATGTTGCCGGGTAGACGTTTACCGCCACCGa                           >  1:14735945/1‑35 (MQ=255)
         cgcgATGTTGCCGGGTAGACGTTTACCGCCACCGa                           >  1:2968796/1‑35 (MQ=255)
          gcgATGTTGCCGGGTAGACGTTTACCGCCACCgcg                          >  1:10642673/1‑33 (MQ=255)
          gcgATGTTGCCGGGTAGACGTTTACCGCCACCGAg                          >  1:7664878/1‑35 (MQ=255)
          gcgATGTTGCCGGGTAGACGTTTACCGCCACCGAg                          >  1:39517/1‑35 (MQ=255)
           cgATGTTGCCGGGTAGACGTTTACCGCCACCGAGt                         >  1:7945306/1‑35 (MQ=255)
            naTGTTGCCGGGTAGACGTTTACCGCCACCGAGTg                        >  1:5006606/2‑35 (MQ=255)
            gATGTTGCCGGGTAGACGTTTACCGCCACCGAGTg                        >  1:9341564/1‑35 (MQ=255)
            gATGTTGCCGGGTAGACGTTTACCGCCACCGAGTg                        >  1:13295910/1‑35 (MQ=255)
            gATGTTGCCGGGTAGACGTTTACCGCCACCGAGTg                        >  1:15576866/1‑35 (MQ=255)
             aTGTTGCCGGGTAGACGTTTACCGCCACCGAGTgg                       >  1:9034322/1‑35 (MQ=255)
              tGTTGCCGGGTAGACGTTTACCGCCACCGAGTggg                      >  1:12892467/1‑35 (MQ=255)
               gTTGCCGGGTAGACGTTTACCGCCACCGAGTGGGt                     >  1:16598906/1‑35 (MQ=255)
                 tGCCGGGTAGACGTTTACCGCCACCGAGTGGGTCa                   >  1:12539265/1‑35 (MQ=255)
                  gCCGGGTAGACGTTTACCGCCACCGAGTGGGTCAt                  >  1:1109607/1‑35 (MQ=255)
                  gCCGGGTAGACGTTTACCGCCACCGAGTGGGTCAt                  >  1:11959125/1‑35 (MQ=255)
                  gCCGGGTAGACGTTTACCGCCACCGAGTGGGTCAt                  >  1:2318115/1‑35 (MQ=255)
                   ccGGGTAGACGTTTACCGCCACCGAGTGGGTCAtc                 >  1:19335502/1‑35 (MQ=255)
                    cGGGTAGACGTTTACCGCCACCGAGTGGGTCAtct                >  1:18755049/1‑35 (MQ=255)
                    cGGGTAGACGTTTACCGCCACCGAGTGGGTCAtct                >  1:17769858/1‑35 (MQ=255)
                     gggTAGCCTTTACCCGCCACCGAGTGGGTCAtctc               <  1:14987759/35‑1 (MQ=19)
                     gggTAGACGTTTACCGCCACCGAGTGGGTCAtctc               >  1:3593111/1‑35 (MQ=255)
                     gggTAGACGTTTACCGCCACCGAGTGGGTCAtctc               >  1:892738/1‑35 (MQ=255)
                       ttAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:17999765/2‑35 (MQ=255)
                       ttAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:2438352/2‑35 (MQ=255)
                       gtagcctttccCCGCCACCGAGTGGGTCATCTCcg             >  1:16092821‑M1/12‑35 (MQ=255)
                       gTAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:7462045/1‑35 (MQ=255)
                       gTAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:17957650/1‑35 (MQ=255)
                       gTAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:6881837/1‑35 (MQ=255)
                       ctAGACGTTTACCGCCACCGAGTGGGTCATCTCcg             >  1:19168499/2‑35 (MQ=255)
                        tAGACGTTTACCGCCACCGAGTGGGTCATCTCcgc            >  1:2339444/1‑35 (MQ=255)
                         gtactttccCCGCCACCGAGTGGGTCATCTCcgcg           >  1:7814621‑M1/10‑35 (MQ=255)
                         agactttccCCGCCACCGAGTGGGTCATCTCcgcg           >  1:4942248‑M1/10‑35 (MQ=255)
                         aGACGTTTACCGCCACCGAGTTGGTCATCTCcgcg           >  1:13860946/1‑35 (MQ=255)
                         aGACGTTTACCGCCACCGAGTGGGTCATCTCcgcg           >  1:5943629/1‑35 (MQ=255)
                         aGACGTTTACCGCCACCGAGTGGGTCATCTCcgcg           >  1:2965781/1‑35 (MQ=255)
                         aGACGTTTACCGCCACCGAGTGGGTCATCTCcgcg           >  1:17592272/1‑35 (MQ=255)
                          gACGTTTACCGCCACCGAGTGGGTCATCTCCGcgt          >  1:14829566/1‑35 (MQ=255)
                          gACGTTTACCGCCACCGAGTGGGTCATCTCCGcgt          >  1:14396428/1‑35 (MQ=255)
                          caCGTTCCCCGCCACCGAGTGGGTCATCTCCGcgt          <  1:7233305/34‑1 (MQ=37)
                           aCGTTTACCGCCACCGAGTGGGTCATCTCCGcgtc         >  1:8011704/1‑35 (MQ=255)
                           aCGTTTACCGCCACCGAGTGGGTCATCTCCGcgtc         >  1:811864/1‑35 (MQ=255)
                            ctttccCCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:4835612‑M1/7‑35 (MQ=255)
                            cGTTTACCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:3590821/1‑35 (MQ=255)
                            cGTTTACCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:18224639/1‑35 (MQ=255)
                            cGTTTACCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:18472030/1‑35 (MQ=255)
                            cGTTTACCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:20558960/1‑35 (MQ=255)
                            cGTTTACCGCCACCGAGTGGGTCATCTCCGcgtcg        >  1:1003361/1‑35 (MQ=255)
                             tttccCCGCCACCGAGTGGGTCATCTCCGcgtcgt       >  1:18888920‑M1/6‑35 (MQ=255)
                             tttccCCGCCACCGAGTGGGTCATCTCCGcgtcgt       >  1:19707923‑M1/6‑35 (MQ=255)
                             gTTTACCGCCACCGAGTGGGTCATCTCCGcgtcgt       >  1:2547141/1‑35 (MQ=255)
                             gTTTACCGCCACCGAGTGGGTCATCTCCGcgtcgt       >  1:15417723/1‑35 (MQ=255)
                             gTTTACCGACACCGAGTGGGTCATCTCCGcgtcgt       <  1:1976868/35‑1 (MQ=255)
                              tttACCGCCACCTAGTGGGTCATCTCCGcgtcgtc      >  1:6552903/1‑35 (MQ=255)
                              tttACCGCCACCGAGTGGGTCATCTCCGcgtcgtc      >  1:13965956/1‑35 (MQ=255)
                              ttgcCCGCCACCGAGTGGGTCATCTCCGcgtcgtc      >  1:12006917‑M1/5‑35 (MQ=255)
                              ttccCCGCCACCGAGTGGGTCATCTCCGcgtcgtc      >  1:4223237‑M1/5‑35 (MQ=255)
                              ttccCCGCCACCGAGTGGGTCATCTCCGcgtcgtc      >  1:7663864‑M1/5‑35 (MQ=255)
                               ttACCGCCACCGAGTGGGTCATCTCCGcgtcgtcg     >  1:10041227/1‑35 (MQ=255)
                               ttACCGCCACCGAGTGGGTCATCTCCGcgtcgtcg     >  1:6774070/1‑35 (MQ=255)
                               ttACCGCCACCGAGTGGGTCATCTCCGcgtcgtcg     >  1:1231956/1‑35 (MQ=255)
                               ttACCGCCACCGAGTGGGTCATCTCCGcgtcgtcg     >  1:13106173/1‑35 (MQ=255)
                                tACCGCCACCGAGTGGGTCATCTCCGcgtcgtcgt    >  1:11196182/1‑35 (MQ=255)
                                tACCGCCACCGAGTGGGTCATCTCCGcgtcgtcgt    >  1:3337367/1‑35 (MQ=255)
                                 cCCGCCACCNAGTGGGTCATCTCCGCgtcgtcgtc   >  1:16418714‑M1/2‑35 (MQ=255)
                                 cCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:8281808‑M1/2‑35 (MQ=255)
                                 cCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:14993815‑M1/2‑35 (MQ=255)
                                 cCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:5747865‑M1/2‑35 (MQ=255)
                                 aCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:1315773/1‑35 (MQ=255)
                                 aCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:5163185/1‑35 (MQ=255)
                                 aCCGCCACCGAGTGGGTCATCTCCGCgtcgtcgtc   >  1:67262/1‑35 (MQ=255)
                                  CCGCCACCGAGTGGGTCATCTCCGCGTCGTCGTCa  <  1:16365656‑M1/35‑1 (MQ=255)
                                  CCGCCACCGAGTGGGTCATCTCCGCGTCGTCGTCa  <  1:4270046‑M1/35‑1 (MQ=255)
                                  |                                  
TTTGGCATTCGCGATGTTGCCGGGTAGACGTTTACCGCCACCGAGTGGGTCATCTCCGCGTCGTCGTCA  >  REL606/1204632‑1204700

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.