New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 575058 =51 (0.500)11 (0.140) 3/38 NT 9.8% coding (616/1449 nt) cusS sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions
?REL606 = 2762587 162 (1.990)coding (1028/1140 nt) nlpD predicted outer membrane lipoprotein

Only 100 of 301 total aligned reads displayed.

GGTTCCGGTGCTACCCATGGTTGCTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGCAT  >  REL606/2762553‑2762621
                                  |                                  
ggTTCCGGTGCTACCCATGGTTGCTATTTTTTGcc                                    <  1:117445/35‑1 (MQ=255)
ggTTCCGGTGCTACCCATGGTTGCTATTTTTTGcc                                    >  1:19314926/1‑35 (MQ=255)
 gTTCCGGTGCTACCCATGGTTGCTATTTTTTGCCc                                   <  1:3842055‑M2/35‑2 (MQ=255)
 gTTCCGGTGCTACCCATGGTTGCTATTTTTTGCCc                                   >  1:19672488‑M2/1‑34 (MQ=255)
  ttCCGGTGCTACACATGGTTGCTATTTTTTGCCcc                                  >  1:10813651‑M2/1‑33 (MQ=255)
   tCCGGTGCTACCCATGGTTGCTATTTTTTGCCccg                                 >  1:10081221‑M2/1‑32 (MQ=255)
   tCCGGTGCTACCCATGGTTGCTATTTTTTGCCccg                                 >  1:7286111‑M2/1‑32 (MQ=255)
   tCCGGTGCTACCCATGGTTGCTATTTTTTGCCccg                                 >  1:19884782‑M2/1‑32 (MQ=255)
    ccGGTGCTACCCATGGTTGCTATTTTTTGCCctgc                                <  1:1958383‑M2/35‑5 (MQ=255)
    ccGGTGCTACCCATGGTTGCTATTTTTTGCCccgc                                >  1:13546465‑M2/1‑31 (MQ=255)
    ccGGTGCTACCCATGGTTGCTATTTTTTGCCccgc                                <  1:3677138‑M2/35‑5 (MQ=255)
     cGGTGCTACCCATGGTTGCTATTTTTTGCCccgcc                               <  1:950949‑M2/35‑6 (MQ=255)
     cGGTGCTACCCATGGTTGCTATTTTTTGCCccgcc                               <  1:6616701‑M2/35‑6 (MQ=255)
      ggTGCTACCCATGGTTGCTATTTTTTGCCCCGCCt                              <  1:16367829/35‑1 (MQ=255)
       gTGCTACCCATGGTTGCTATTTTTTGCCCCGCCtt                             >  1:7647369/1‑35 (MQ=255)
       gTGCTACCCATGGTTGCTATTTTTTGCCCCGCCtt                             <  1:648443/35‑1 (MQ=255)
        tGCTACCCATGGTTGCTATTTTTTGCCCCGCCTTc                            >  1:10017324/1‑35 (MQ=255)
         gCTACCCATGGTTGCTATTTTTTGCCCCGCCTTCa                           >  1:2900767/1‑35 (MQ=255)
         gCTACCCATGGTTGCTATTTTTTGCCCCGCCTTCa                           <  1:14807241/35‑1 (MQ=255)
         acTACCCATGGTTGCTATTTTTTGCCCCGCCTTCa                           >  1:14714578/2‑35 (MQ=255)
           tACCCATGGTTGCTATTTTTTTCCCCGCCTTCAct                         >  1:19488999/1‑35 (MQ=255)
           tACCCATGGTTGCTATTTTTTGCCCCGCCTTCAct                         >  1:1214163/1‑35 (MQ=255)
           tACCCATGGTTGCTATTTTTTGCCCCGCCTTCAct                         <  1:20373145/35‑1 (MQ=255)
           tACCCATGGTTGCTATTTTTTGCCCCGCCTTCAct                         >  1:5199996/1‑35 (MQ=255)
            aCCCATGGTTGCTATTTTTTGCCCCGCCTTCActt                        >  1:3141889/1‑35 (MQ=255)
            aCCCATGGTTGCTATTTTTTGCCCCGCCTTCActt                        <  1:4119118/35‑1 (MQ=255)
            aCCCATGGTTGCTATTTTTTGCCCCGCCTTCActt                        >  1:9148358/1‑35 (MQ=255)
            aCCCATGGTTGCTATTTTTTGCCCCGCCTTCActt                        >  1:9304922/1‑35 (MQ=255)
             cccATGGTTGCTATTTTTTGCCCCGCCTTCActtc                       <  1:1750479/35‑1 (MQ=255)
             cccATGGTTGCTATTTTTTGCCCCGCCTTCActtc                       <  1:16068368/35‑1 (MQ=255)
              ccATGGTTGCTATTTTTTGCCCCGCCTTCActtct                      <  1:13182801/35‑1 (MQ=255)
               cATGGTTGCTATTTTTTGCCCCGCCTTCActtctt                     <  1:5661469/35‑1 (MQ=255)
               cATGGTTGCTATTTTTTGCCCCGCCTTCActtctt                     <  1:1518582/35‑1 (MQ=255)
               cATGGTTGCTATTTTTTGCCCCGCCTTCActtctt                     <  1:15535117/35‑1 (MQ=255)
               cATGGTTGCTATTTTTTGCCCCGCCTTCActtctt                     <  1:16891460/35‑1 (MQ=255)
                aTGGTTGCTATTTTTTGCCCCGCCTTCACTTCttg                    <  1:7046015/35‑1 (MQ=255)
                aTGGTTGCTATTTTTTGCCCCGCCTTCACTTCttg                    <  1:1407334/35‑1 (MQ=255)
                 tGGTTGCTATTTTTTGCCCCGCCTTCACTTCttgt                   <  1:17205497/35‑1 (MQ=255)
                 tGGTTGCTATTTTTTGCCCCGCCTTCACTTCttgt                   <  1:13734487/35‑1 (MQ=255)
                 tGGTTGCTATTTTTTGCCCCGCCTTCACTTCttgt                   >  1:6860389/1‑35 (MQ=255)
                 tGGTTGCTATTTTTTGCCCCGCCTTCACTTCttgt                   <  1:19066704/35‑1 (MQ=255)
                  ggTTGCTATTTTTTGCCCCGCCTTCACTTCttgtt                  >  1:13283690/1‑35 (MQ=255)
                  ggTTGCTATTTTTTGCCCCGCCTTCACTTCttgtt                  >  1:9382754/1‑35 (MQ=255)
                  ggTTGCTATTTTTTGCCCCGCCTTCACTTCttgtt                  <  1:20549446/35‑1 (MQ=255)
                  ggTTGCTATTTTTTGCCCCGCCTTCACTTCttgtt                  >  1:15908819/1‑35 (MQ=255)
                  ggTTGCTATTTTTTGCCCCGCCTTCACTTCttgtt                  <  1:11159115/35‑1 (MQ=255)
                   gTTGCTATTTTTTGCCCCGCCTTCACTTCttgttg                 >  1:14147767/1‑35 (MQ=255)
                   gTTGCTATTTTTTGCCCAGCCTTCACTTCttgttg                 <  1:18112337/35‑1 (MQ=255)
                   gTTGCTATTTTTTGCCACGCCTTCACTTCttgttg                 <  1:11439998/35‑1 (MQ=255)
                    ttGCTATTTTTTGCCCCGCCTTCACTTCTtgttgt                >  1:15285839/1‑35 (MQ=255)
                    ttGCTATTTTTTGCCCCGCCTTCACTTCTtgttgt                >  1:15032241/1‑35 (MQ=255)
                    ttGCTATTTTTTGCCCCGCCTTCACTTCTtgttgt                >  1:4630642/1‑35 (MQ=255)
                     tGCTATTTTTTGCCCCGCCTTCACTTCTTgttgtt               >  1:17337285/1‑35 (MQ=255)
                     tGCTATTTTTTGCCCCGCCTTCACTTCTTgttgtt               >  1:14429802/1‑35 (MQ=255)
                     tGCTATTTTTTGCCCCGCATTCACTTCTTgttgtt               <  1:19144671/35‑1 (MQ=255)
                      gCTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTc              <  1:11937744/35‑1 (MQ=255)
                       cTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTcc             >  1:3935892/1‑35 (MQ=255)
                       cTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTcc             <  1:13907802/35‑1 (MQ=255)
                       cTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTcc             >  1:2338336/1‑35 (MQ=255)
                       cTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTcc             <  1:14576335/35‑1 (MQ=255)
                        tATTTTTTGCCCCGCCTTCACTTCTTGTTGTTccc            <  1:4683718/35‑1 (MQ=255)
                        tATTTTTTGCCCCGCCTTCACTTCTTGTTGTTccc            <  1:4954166/35‑1 (MQ=255)
                        tATTTTTTGCCCCGCCTTCACTTCTTGTTGTTccc            >  1:15386401/1‑35 (MQ=255)
                        tATTTTTTGCCCCGCCTTCACTTCTTGTTGTTccc            >  1:12585945/1‑35 (MQ=255)
                        tATTTTTTGCCCCGCCTTCACTTCTTGTTGTTccc            <  1:845142/35‑1 (MQ=255)
                         aTTTTTTGCCCCGCCTTCACTTCTTGTTGTTCCCg           >  1:452979/1‑35 (MQ=255)
                          ttttttGCCCCGCCTTCACTTCTTGTTGTTCCCgg          <  1:5897854/35‑1 (MQ=255)
                          ttttttGCCCCGCCTTCACTTCTTGTTGTTCCCgg          >  1:16206866/1‑35 (MQ=255)
                          ttttttGCCCCGCCTTCACTTCTTGTTGTTCCCgg          <  1:12947914/35‑1 (MQ=255)
                          ttttttGCCCCGCCTTCACTTCTTGTTGTTCCCgg          <  1:2461979/35‑1 (MQ=255)
                          ttttatGCCccgccaacagtacgataaagacgatc          >  1:8035776‑M2/1‑9 (MQ=255)
                           tttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGa         <  1:8235505/35‑1 (MQ=255)
                           tttatGCCccgccaacagtacgataaagacgatca         >  1:6239564‑M2/1‑8 (MQ=255)
                            ttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAc        >  1:8878684/1‑35 (MQ=255)
                            ttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAc        <  1:2184453/35‑1 (MQ=255)
                            ttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAc        <  1:18170165/35‑1 (MQ=255)
                            ttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAc        >  1:4859266/1‑35 (MQ=255)
                            ttttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAc        <  1:3290084/35‑1 (MQ=255)
                             tttGCCccgccaacagtacgataaagacgatcagg       >  1:10491564‑M2/1‑6 (MQ=255)
                             tttGCCCCGCCTTCACTTCTTGTTGTTCCCGGAcc       >  1:18437636/1‑35 (MQ=255)
                              ttTCCccgccaacagtacgataaagacgatcagga      >  1:9728578‑M2/1‑5 (MQ=255)
                              ttGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCa      <  1:784429/35‑1 (MQ=255)
                              ttGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCa      <  1:6104434/35‑1 (MQ=255)
                               tGCCccgccaacagtacgataaagacgatcaggat     >  1:10272184‑M2/1‑4 (MQ=255)
                               tGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAg     >  1:7531605/1‑35 (MQ=255)
                               tGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAg     >  1:3504368/1‑35 (MQ=255)
                               tGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAg     <  1:2648315/35‑1 (MQ=255)
                               tGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAg     >  1:12487410/1‑35 (MQ=255)
                               tGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAg     >  1:16980893/1‑35 (MQ=255)
                               tGCCCAGCCTTCACTTCTTGTTGTTCCCGGACCAg     <  1:10752332/35‑1 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    >  1:10849631/1‑35 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    >  1:4781458/1‑35 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    >  1:16603044/1‑35 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    <  1:3380999/35‑1 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    >  1:20198126/1‑35 (MQ=255)
                                gCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGc    <  1:17914861/35‑1 (MQ=255)
                                gCCCCGCATTCACTTCTTGTTGTTCCCGGACCAGc    <  1:14991681/35‑1 (MQ=255)
                                  cccGCCTTCACTTCTTGTTGTTCCCGGACCAGCAt  <  1:10576376/35‑1 (MQ=255)
                                  cccGCCTTCACTTCTTGTTGTTCCCGGACCAGCAt  >  1:4392351/1‑35 (MQ=255)
                                  cccGCCTTCACTTCTTGTTGTTCCCGGACCAGCAt  >  1:5440990/1‑35 (MQ=255)
                                  |                                  
GGTTCCGGTGCTACCCATGGTTGCTATTTTTTGCCCCGCCTTCACTTCTTGTTGTTCCCGGACCAGCAT  >  REL606/2762553‑2762621

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.