New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1590579 =43 (0.420)11 (0.140) 3/38 NT 20.2% intergenic (+294/+147) ydeE/ydeH predicted transporter/hypothetical protein
?REL606 = 3487475 53 (0.650)coding (608/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression

Only 100 of 126 total aligned reads displayed.

CACTTCAACCGCATGATTGAGCAGATCGAAAAAGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTAAC  >  REL606/3487441‑3487509
                                  |                                  
cACTTCAACCGCATGATTGAGCAGATCGAAAAAGt                                    <  1:15750695/35‑1 (MQ=255)
cACTTCAACCGCATGATTGAGCAGATCGAAAAAGt                                    >  1:13222993/1‑35 (MQ=255)
 aCTTCAACCGCATGATTGAGCAGATCGAAAAAGTg                                   <  1:20521425‑M2/35‑2 (MQ=255)
 aCTTCAACCGCATGATTGAGCAGATCGAAAAAGTg                                   <  1:20612514‑M2/35‑2 (MQ=255)
 aCTTCAACCGCATGATTGAGCAGATCGAAAAAGTg                                   >  1:6410432‑M2/1‑34 (MQ=255)
  cTTCAACCGCATGATTGAGCAGATCGAAAAAGTgg                                  <  1:19016883‑M2/35‑3 (MQ=255)
   ttCAACCGCATGATTGAGCAGATCGAAAAAGTggc                                 >  1:10616647‑M2/1‑32 (MQ=255)
   ttCAACCGCATGATTGAGCAGATCGAAAAAGTggc                                 <  1:10278498‑M2/35‑4 (MQ=255)
    tCAACCGCATGATTGAGCAGATCGAAAAAGTggcg                                >  1:6572698‑M2/1‑31 (MQ=255)
    tCAACCGCATGATTGAGCAGATCGAAAAAGTggcg                                >  1:19985045‑M2/1‑31 (MQ=255)
    tCAACCGCATGATTGAGCAGATCGAAAAAGTggcg                                >  1:4239889‑M2/1‑31 (MQ=255)
     cAACCGCATGATTGAGCAGATCGAAAAAGTggcga                               <  1:10459502‑M2/35‑6 (MQ=255)
     cAACCGCATGATTGAGCAGATCGAAAAAGTggcga                               >  1:13062326‑M2/1‑30 (MQ=255)
     cAACCGCATGATTGAGCAGATCGAAAAAGTggcga                               <  1:9537884‑M2/35‑6 (MQ=255)
      aaCCGCATTATTGAGCAGATCGAAAAAGTggcgaa                              <  1:13152973‑M2/35‑7 (MQ=255)
      aaCCGCATGATTGAGCAGATCGAAAAAGTggcgaa                              <  1:11538492‑M2/35‑7 (MQ=255)
      aaCCGCATGATTGAGCAGATCGAAAAAGTGGCGAt                              <  1:19965273/35‑1 (MQ=255)
      aaCCGCATGATTGAGCAGATCGAAAAAGTGGCGAt                              >  1:9782417/1‑35 (MQ=255)
       aCCGCATGATTGAGCAGATCGAAAAAGTggcgaac                             <  1:12537832‑M2/35‑8 (MQ=255)
       aCCGCATGATTGAGCAGATCGAAAAAGTggcgaaa                             <  1:16137520‑M2/35‑8 (MQ=255)
       aCCGCATGATTGAGCAGATCGAAAAAGTGGCGATc                             <  1:5107738/35‑1 (MQ=255)
       aCCGCATGATTGAGCAGATCGAAAAAGTGGCGATc                             <  1:13648575/35‑1 (MQ=255)
        ccGCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:20471946/35‑1 (MQ=255)
        ccGCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:4617497/35‑1 (MQ=255)
        ccGCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:13250949/35‑1 (MQ=255)
        ccGCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:8603860/35‑1 (MQ=255)
        ccGCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:17977387/35‑1 (MQ=255)
        cagCATGATTGAGCAGATCGAAAAAGTGGCGATCa                            <  1:12941040/33‑1 (MQ=255)
         cGCATGATTGAGCAGATCGAAAAAGTggcgaacaa                           <  1:7585344‑M2/35‑10 (MQ=255)
          tcATGATTGAGCAGATCGAAAAAGTGGCGATCaaa                          <  1:444035/34‑1 (MQ=255)
          gCATGATTGAGTAGATCGAAAAAGTGGCGATCaaa                          <  1:7744433/35‑1 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTggcgaacaaa                          <  1:14658524‑M2/35‑11 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTggcgaacaaa                          <  1:10020831‑M2/35‑11 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTggcgaaaaaa                          <  1:5027353‑M2/35‑11 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTggcgaaaaaa                          <  1:8572953‑M2/35‑11 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTGGCGATCaaa                          <  1:322744/35‑1 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTGGCGATCaaa                          <  1:9240099/35‑1 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTGGCGATCaaa                          <  1:10507100/35‑1 (MQ=255)
          gCATGATTGAGCAGATCGAAAAAGTGGCGATCaaa                          <  1:5473793/35‑1 (MQ=255)
           cATGATTGAGCAGATCGAAAAAGTggcgataaaaa                         <  1:18850492‑M2/35‑12 (MQ=255)
           cATGATTGAGCAGATCGAAAAAGTggcgaacaaaa                         <  1:15339911‑M2/35‑12 (MQ=255)
           cATGATTGAGCAGATCGAAAAAGTggcgaaaaaaa                         <  1:13633383‑M2/35‑12 (MQ=255)
           cATGATTGAGCAGATCGAAAAAGTGGCGATCAAAt                         <  1:11188587/35‑1 (MQ=255)
           cATGATTGAGCAGATCGAAAAAGTGGCGATCAAAt                         <  1:17969231/35‑1 (MQ=255)
            aTGATTGAGCAGATCGAAAAAGTGGCGATCaaaac                        >  1:10365133/1‑33 (MQ=255)
             tGATTTAGCAGATCGAAAAAGTGCCGATCAAATcc                       <  1:613051/35‑1 (MQ=37)
             tGATTGAGCAGATCGAAAAAGTggcgaacaaaaac                       <  1:13906628‑M2/35‑14 (MQ=255)
             tGATTGAGCAGATCGAAAAAGTggcgaaaaaatac                       <  1:17610558‑M2/35‑14 (MQ=255)
             tGATTGAGCAGATCGAAAAAGTGGCGATCAAATcc                       <  1:8046750/35‑1 (MQ=255)
             tGATTGAGCAGATCGAAAAAGTGGCGATCAAATcc                       <  1:12174255/35‑1 (MQ=255)
             tGATTGAGCAGATCGAAAAAGTGGCGATCAAATcc                       <  1:15735887/35‑1 (MQ=255)
              gATTGAGCAGATCGAAAAAGTggcgaaaaaaaccc                      <  1:11442122‑M2/35‑15 (MQ=255)
              gATTGAGCAGATCGAAAAAGTGGCGATCAAATccc                      <  1:19508113/35‑1 (MQ=255)
              gATTGAGCAGATCGAAAAAGTGGCGATCAAATccc                      <  1:5959109/35‑1 (MQ=255)
               aTTGAGCAGATCGAAAAAGTggcgaacaaaaaccc                     <  1:2894254‑M2/35‑16 (MQ=255)
               aTTGAGCAGATCGAAAAAGTGGCGATCAAATCCcg                     <  1:2470475/35‑1 (MQ=255)
               aTTGAGCAGATCGAAAAAGTGGCGATCAAAACCcg                     >  1:13691560/1‑35 (MQ=255)
               aTTGAGCAGATCGAAAAAGTGGCGAATAAATcccc                     >  1:8505490/1‑34 (MQ=25)
                ttGAGCAGATCGAAAAAGTggcgaaaaaacaccgc                    <  1:8406154‑M2/35‑17 (MQ=255)
                ttGAGCAGATCGAAAAAGTGGCGATCAAATCCcgc                    <  1:5463601/35‑1 (MQ=255)
                ttGAGCAGATCGAAAAAGTGGCGATCAAATCCcgc                    <  1:18393756/35‑1 (MQ=255)
                ttGAGCAGATCGAAAAAGTGGCGAAAAAAAccccc                    >  1:4877992/1‑33 (MQ=18)
                 tGAGCAGATCGAAAAAGTggcgaacaaaaaccgcg                   <  1:5325702‑M2/35‑18 (MQ=255)
                 tGAGCAGATCGAAAAAGTggcgaaaaaaaaccccc                   <  1:5680333‑M2/35‑18 (MQ=255)
                 tGAGCAGATCGAAAAAGTggcgaaaaaaaaccacg                   <  1:11552360‑M2/35‑18 (MQ=255)
                 tGAGCAGATCGAAAAAGTGGCGATCAAATCCcgcg                   <  1:1312202/35‑1 (MQ=255)
                 tGAGCAGATCGAAAAAGTGGCGAACAAAAcccccc                   >  1:14446881/1‑32 (MQ=21)
                  gAGCAGATCGAAAAAGTGGCGATCAAATCCcgcgc                  <  1:1483246/35‑1 (MQ=255)
                  gAGCAGATCGAAAAAGTGGCGATCAAATCCcgcgc                  <  1:7215616/35‑1 (MQ=255)
                  gAGCAGATCGAAAAAGTGGCGATCAAATCCcgcgc                  <  1:10934432/35‑1 (MQ=255)
                  gAGCAGATCGAAAAAGTGGCGATCAAATCCcgcgc                  <  1:19689354/35‑1 (MQ=255)
                  gAGCAGATCGAAAAAGTGGCGATCAAATACcgcgc                  <  1:198911/35‑1 (MQ=255)
                   aGCAGATCGAAAAAGTTGCGATCAAATCCcgcgcg                 >  1:674058/1‑35 (MQ=255)
                   aGCAGATCGAAAAAGTCGCGATCAAATCCcgcgcg                 >  1:11926467/1‑35 (MQ=255)
                     cAGATCGAAAAAGTGGCGATCAAATCCCGCGCGcc               <  1:4403599/35‑1 (MQ=255)
                     cAGATCGAAAAAGTGGCGATCAAATCCCGCGCGcc               <  1:18221999/35‑1 (MQ=255)
                     cAGATCGAAAAAGTGGCGATCAAATCCCGCGCGcc               <  1:2730307/35‑1 (MQ=255)
                     cAGATCGAAAAAGTGGCGAAAAAAACCCCCGCGcc               >  1:8604712/1‑35 (MQ=12)
                        aTCGAAAAAGTGGCGATCAAATCCCGCGCGCCGAt            <  1:16584710/35‑1 (MQ=255)
                        aTCGAAAAAGTGGCGATCAAATCCCGCGCGCCGAt            <  1:19751885/35‑1 (MQ=255)
                         tCGAAAAAGTGGCGATCAAATCCCGCGCGCCGAtt           <  1:16854146/35‑1 (MQ=255)
                         tCGAAAAAGTGGCGAAAAAAACCCCCCCGCCggct           >  1:12484237/1‑32 (MQ=2)
                          cGAAAAAGTGGCGATCAAATCCCGCGCGCCGATTc          <  1:3548270/35‑1 (MQ=255)
                           gAAAAAGTGGCGATCAAATCCCGCGCGCCGATTCt         <  1:13708534/35‑1 (MQ=255)
                            aaaaaGTGGCGATCAAATCCCGCGCGCCGATTCTg        <  1:13490985/35‑1 (MQ=255)
                             aaaaGTGGCGATCAAATCCCGCGCGCCGATTCTGc       <  1:19134479/35‑1 (MQ=255)
                             aaaaGTGGCGATCAAATCCCGCGCGCCGATTCTGc       <  1:5263256/35‑1 (MQ=255)
                             aaaaGTGGCGATCAAATCCCGCGCGCCGATTCTGc       <  1:13126493/35‑1 (MQ=255)
                              aaaGTGGCGATCAAATCCCGCGCGCCGATTCTGCt      <  1:5927685/35‑1 (MQ=255)
                              aaaGTGGCGATCAAATCCCGCGCGCCGATTCTGCt      <  1:5804363/35‑1 (MQ=255)
                               aaGTGGCGATCAAATCCCGCGCGCCGATTCTGCtt     <  1:10752597/35‑1 (MQ=255)
                               aaGTGGCGATCAAATCCCGCGCGCCGATTCTGCtt     <  1:10548439/35‑1 (MQ=255)
                               aaGTGGCGATCAAAGCCCGCGCGCCGATTATGCtt     <  1:19749524/35‑1 (MQ=37)
                                aGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTa    <  1:1251309/35‑1 (MQ=255)
                                aGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTa    <  1:10957207/35‑1 (MQ=255)
                                aGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTa    <  1:6274752/35‑1 (MQ=255)
                                aGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTa    <  1:4906998/35‑1 (MQ=255)
                                  tGGCGATCAAATCCCGCGCGCCGATTCTGCTTAAc  <  1:4948211/35‑1 (MQ=255)
                                  tGGCGATCAAATCCCGCGCGCCGATTCTGCTTAAc  <  1:16422734/35‑1 (MQ=255)
                                  tGGCGATCAAATCCCGCGCGCCGATTCTGCTTAAc  <  1:20055145/35‑1 (MQ=255)
                                  |                                  
CACTTCAACCGCATGATTGAGCAGATCGAAAAAGTGGCGATCAAATCCCGCGCGCCGATTCTGCTTAAC  >  REL606/3487441‑3487509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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.