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 152 total aligned reads displayed.

CTGACGCTGCGGATCGGCGCGTGACCTTTATGTACCGCCAACAGTACGATAAAGACGATCAGGATGCTG  >  REL606/575024‑575092
                                  |                                  
gttccggtgctacccatggttgctattttttgccc                                    >  1:1785127‑M1/35‑35 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    <  1:4001940‑M1/1‑1 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    <  1:3842055‑M1/1‑1 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    >  1:19672488‑M1/35‑35 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    >  1:14532419‑M1/35‑35 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    <  1:920820‑M1/1‑1 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    >  1:3342231‑M1/35‑35 (MQ=255)
gttccggtgctacccatggttgctattttttgccc                                    <  1:2183309‑M1/1‑1 (MQ=255)
cTGACGCTGCGGATCGGCGCGTGACCTTTATGTAc                                    <  1:14491879/35‑1 (MQ=255)
cTGACGCTGCGGATCGGCGCGTGACCTTTATGTAc                                    >  1:13843989/1‑35 (MQ=255)
cTGACGCTGCGGATCGGCGCGTGACCTTTATGTAc                                    >  1:2238916/1‑35 (MQ=255)
 ttccggtgctacccatggttgctattttttgcccc                                   >  1:18148696‑M1/34‑35 (MQ=255)
 ttccggtgctacccatggttgctattttttgcccc                                   >  1:6071053‑M1/34‑35 (MQ=255)
 ttccggtgctacacatggttgctattttttgcccc                                   >  1:10813651‑M1/34‑35 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   <  1:16694762/35‑1 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   <  1:15844218/35‑1 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   >  1:12678881/1‑35 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   <  1:6810736/35‑1 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   <  1:3173572/35‑1 (MQ=255)
 tGACGCTGCGGATCGGCGCGTGACCTTTATGTAcc                                   <  1:3601943/35‑1 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:7286111‑M1/33‑35 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:10081221‑M1/33‑35 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:1477336‑M1/33‑35 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  <  1:9467882‑M1/3‑1 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:14313798‑M1/33‑35 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:19884782‑M1/33‑35 (MQ=255)
  tccggtgctacccatggttgctattttttgccCCg                                  >  1:8572959‑M1/33‑35 (MQ=255)
  gACGCTGCGGATCGGCGCGTGACCTTTATGTACCg                                  >  1:3676860/1‑35 (MQ=255)
  gACGCTGCGGATCGGCGCGTGACCTTTATGTACCg                                  >  1:13056773/1‑35 (MQ=255)
   ccggtgctacccatggttgctattttttgccCCGc                                 >  1:13546465‑M1/32‑35 (MQ=255)
   ccggtgctacccatggttgctattttttgccCCGc                                 >  1:19621687‑M1/32‑35 (MQ=255)
   ccggtgctacccatggttgctattttttgccCCGc                                 <  1:19350300‑M1/4‑1 (MQ=255)
   ccggtgctacccatggttgctattttttgccCCGc                                 <  1:3677138‑M1/4‑1 (MQ=255)
   ccggtgctacccatggttgctattttttgccCCGc                                 >  1:12546184‑M1/32‑35 (MQ=255)
   aCGCTGCGGATCGGCGCGTGACCTTTATGTACCGc                                 >  1:20224989/1‑35 (MQ=255)
   aCGCTGCGGATCGGCGCGTGACCTTTATGTACCGc                                 >  1:9534485/1‑35 (MQ=255)
    cggtgctacccatggttgctattttttgccCCGcc                                <  1:6616701‑M1/5‑1 (MQ=255)
    cggtgctacccatggttgctattttttgccCCGcc                                >  1:5710627‑M1/31‑35 (MQ=255)
    cggtgctacccatggttgctattttttgccCCGcc                                <  1:7741533‑M1/5‑1 (MQ=255)
    cGCTGCGGATCGGCGCGTGACCTTTATGTACCGcc                                >  1:6864087/1‑35 (MQ=255)
    cGCTGCGGATCGGCGCGTGACCTTTATGTACCGcc                                >  1:3951727/1‑35 (MQ=255)
    cGCTGCGGATCGGCGCGTGACCTTTATGTACCGcc                                >  1:10573531/1‑35 (MQ=255)
    cGCTGCGGATCGGCGCGTGACCTTTATGTACCGcc                                >  1:16847605/1‑35 (MQ=255)
     gCTGCGGATCGGCGCGTGACCTTTATGTACCGCCa                               >  1:8815074/1‑35 (MQ=255)
      cTGCGGATCTGCGCGTGACCTTTATGTACCGCCaa                              >  1:16031819/1‑35 (MQ=255)
         cGGATCGGCGCTTTACCTTTATGTACCGCCACCAg                           >  1:1856637/1‑35 (MQ=25)
         cGGATCGGCGCGTGACCTTTATGTACCGCCAACAg                           >  1:2551909/1‑35 (MQ=255)
         cGGATCGGCGCGTGACCTTTATGTACCGCCAACAg                           >  1:2851653/1‑35 (MQ=255)
           gATCGGCGCGTGACCTTTATGTACCGCCAACAGTa                         >  1:4389740/1‑35 (MQ=255)
             tCGGCGCGTGACCTTTATGTACCGCCAACAGTACg                       >  1:19530844/1‑35 (MQ=255)
              cGGCGCGTGACCTTTATGTACTGCCAACAGTACGa                      >  1:5845770/1‑35 (MQ=255)
              cGGCGCGTGACCTTTATGTACCGCCAACAGTACGa                      >  1:17116568/1‑35 (MQ=255)
              cGGCGCGTGACCTTTATGTACCGCCAACAGTACGa                      >  1:4271713/1‑35 (MQ=255)
              cGGCGCGTGACCTTTATGTACCGCCAACAGTACGa                      >  1:11278965/1‑35 (MQ=255)
              cGGCGCGTGACCTTTATGTACCGCCAACAGTACGa                      >  1:12417098/1‑35 (MQ=255)
                 cgcgTGACCTTTATGTACCGCCAACAGTACGATaa                   >  1:10196667/1‑35 (MQ=255)
                 cgcgTGACCTTTATGTACCGCCAACAGTACGATaa                   >  1:13252786/1‑35 (MQ=255)
                  gcgTGACCTTTATGTACCGCCAACAGTACGATaaa                  >  1:4476326/1‑35 (MQ=255)
                  gcgTGACCTTTATGTACCGCCAACAGTACGATaaa                  >  1:3831779/1‑35 (MQ=255)
                  gcgTGACCTTTATGTACCGCCAACAGTACGATaaa                  >  1:18400422/1‑35 (MQ=255)
                  gcgTGACCTTTATGTACCGCCAACAGTACGATaaa                  >  1:19980693/1‑35 (MQ=255)
                   cgTGACCTTTATGTACCGCCAACAGTACGATAAAg                 >  1:654234/1‑35 (MQ=255)
                    gTGACCTTTATGTACCGCCAACAGTACGATAAAGa                >  1:15538559/1‑35 (MQ=255)
                    gTGACCTTTATGTACCGCCAACAGTACGATAAAGa                >  1:10038287/1‑35 (MQ=255)
                     tGACCTTTATGTACCGCCAACAGTACGATAAAGAc               >  1:725404/1‑35 (MQ=255)
                     tGACCTTTATGTACCGCCAACAGTACGATAAAGAc               >  1:13943849/1‑35 (MQ=255)
                     tGACCTTTATGTACCGCCAACAGTACGATAAAGAc               >  1:13711602/1‑35 (MQ=255)
                      gACCTTTATGTACCGCCAACAGTACGATAAAGACg              >  1:8767349/1‑35 (MQ=255)
                      gACCTTTATGTACCGCCAACAGTACGATAAAGACg              >  1:1197695/1‑35 (MQ=255)
                       ccttttATGTCCCGCCAACAGTACGATAAAGACGa             <  1:3580529/32‑1 (MQ=37)
                        cttttatgccCCGCCAACAGTACGATAAAGACGAt            >  1:4252622‑M1/11‑35 (MQ=255)
                         ttttatgccCCGCCAACAGTACGATAAAGACGATc           >  1:8035776‑M1/10‑35 (MQ=255)
                         cTTTATGTACCGCCAACAGTACGATAAAGACGATc           >  1:18012035/1‑35 (MQ=255)
                         cTTTATGTACCGCCAACAGTACGATAAAGACGATc           >  1:7553354/1‑35 (MQ=255)
                          ttttttccCCGCCAACAGTACGATAAAGACGATCa          >  1:13429517‑M1/9‑35 (MQ=255)
                          tttttgccCCGCCAACAGTACGATAAAGACGATCa          >  1:7617607‑M1/9‑35 (MQ=255)
                          tttatgccCCGCCAACAGTACGATAAAGACGATCa          >  1:6239564‑M1/9‑35 (MQ=255)
                          tttatgccCCGCCAACAGTACGATAAAGACGATCa          >  1:19076177‑M1/9‑35 (MQ=255)
                          tttATGTACCGCCAACAGTACGATAAAGACGATCa          >  1:5194560/1‑35 (MQ=255)
                           ttATGTACCGCCAACAGTACGATAAAGACGATCAg         >  1:11036310/1‑35 (MQ=255)
                            tttgccCCGCCAACAGTACGATAAAGACGATCAgg        >  1:10491564‑M1/7‑35 (MQ=255)
                            tATGTACCGCCAACAGTACGATAAAGACGATCAgg        >  1:5456284/1‑35 (MQ=255)
                            tATGTACCGCCAACAGTACGATAAAGACGATCAgg        >  1:13453784/1‑35 (MQ=255)
                            tATGTACCGCCAACAGTACGATAAAGACGATCAgg        >  1:12136825/1‑35 (MQ=255)
                             atcccCCGCCAACAGTACGATAAAGACGATCAGGa       >  1:15367438‑M1/6‑35 (MQ=255)
                              tttcCCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:15008832‑M1/5‑35 (MQ=255)
                              tgccCCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:9151553‑M1/5‑35 (MQ=255)
                              tctcCCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:19974404‑M1/5‑35 (MQ=255)
                              tGTACCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:20391220/1‑35 (MQ=255)
                              tGTACCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:11991609/1‑35 (MQ=255)
                              tGTACCGCCAACAGTACGATAAAGACGATCAGGAt      >  1:11414567/1‑35 (MQ=255)
                               ttACCGCCAACAGTACGATAAAGACGATCAGGATg     <  1:1756673/34‑1 (MQ=255)
                               gTACCGCCAACAGTACGATAAAGACGATCAGGATg     >  1:7891794/1‑35 (MQ=255)
                                tACCGCCAACAGTACGATAAAGACGATCAGGATGc    >  1:292975/1‑35 (MQ=255)
                                ccCCGCCAACAGTACGATAAAGACGATCAGGATGc    >  1:4807852‑M1/3‑35 (MQ=255)
                                 cCCGCCAACAGTACGATAAAGACGATCAGGATGCt   >  1:9322037‑M1/2‑35 (MQ=255)
                                 cCCGCCAACAGTACGATAAAGACGATCAGGATGCt   >  1:10030053‑M1/2‑35 (MQ=255)
                                  CCGCCAACAGTACGATAAAGACGATCAGGATGCTg  <  1:2930767‑M1/35‑1 (MQ=255)
                                  CCGCCAACAGTACGATAAAGACGATCAGGATGCTg  <  1:16252893‑M1/35‑1 (MQ=255)
                                  CCGCAAACAGTACGATAAAGACGATCAGGATGCTg  >  1:18863688‑M1/1‑35 (MQ=255)
                                  |                                  
CTGACGCTGCGGATCGGCGCGTGACCTTTATGTACCGCCAACAGTACGATAAAGACGATCAGGATGCTG  >  REL606/575024‑575092

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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.