New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 = 3744020103 (1.000)12 (0.160) 5/36 NT 18.0% coding (300/807 nt) waaP kinase that phosphorylates core heptose of lipopolysaccharide
?REL606 = 3861481 32 (0.420)coding (1109/1617 nt) yieC carbohydrate‑specific outer membrane porin, cryptic

Only 100 of 188 total aligned reads displayed.

AGGTTCTGGTCAGCGGATTAATACCTTTTTCGCCAAATGCCACCCCATACATAGTATCAACGCCGACAT  >  REL606/3743986‑3744054
                                  |                                  
aGGTTCTGGTCAGCGGATTAATACCTTTTTCGCCA                                    >  1:14132418‑M1/1‑35 (MQ=255)
aGGTTCTGGTCAGCGGATTAATACCTTTTTCGCCA                                    <  1:20400485‑M1/35‑1 (MQ=255)
aGGTTCTGGTCAGCGGATTAATACCTTTTTCGCCA                                    <  1:7632299‑M1/35‑1 (MQ=255)
 ggTTCTGGTCAGCGGATTAATACCTTTTTCGCCaa                                   >  1:11880463/1‑35 (MQ=255)
  gTTCTGGTCAGCGGATTAATACCTTTTTCGCCaaa                                  <  1:12958/35‑1 (MQ=255)
  gTTCTGGTCAGCGGATTAATACCTTTTTCGCCaaa                                  <  1:9260573/35‑1 (MQ=255)
  gTTCTGGTCAGCGGATTAATACCTTTTTCGCCaaa                                  <  1:11796782/35‑1 (MQ=255)
   ttCTGGTCAGCGGATTAATACCTTTTTCGCCAAAt                                 <  1:12548905/35‑1 (MQ=255)
   ttCTGGTCAGCGGATTAATACCTTTTTCGCCAAAt                                 <  1:580887/35‑1 (MQ=255)
    tCTGGTCAGCGGATTAATACCTTTTTCGCCAAATg                                >  1:4848320/1‑35 (MQ=255)
    tCTGGTCAGCGGATTAATACCTTTTTCGCCAAATg                                >  1:9455733/1‑35 (MQ=255)
     cTGGTCAGCGGATTAATACCTTTTTCGCCAAATGc                               <  1:297501/35‑1 (MQ=255)
     cTGGTCAGCGGATTAATACCTTTTTCGCCAAATGc                               >  1:9278162/1‑35 (MQ=255)
      tGGTCAGCGGATTAATACCTTTTTCGCCAAATGcc                              <  1:7984727/35‑1 (MQ=255)
      tGGTCAGCGGATTAATACCTTTTTCGCCAAATGcc                              <  1:18237405/35‑1 (MQ=255)
      tGGTCAGCGGATTAATACCTTTTTCGCCAAATGcc                              <  1:17917917/35‑1 (MQ=255)
       ggTCAGCTGATTAATACCTTTTTCGCCAAATGCCa                             >  1:14814416/1‑35 (MQ=255)
        gTCAGCGGATTAATACCTTTTTCGCCAAATGCCAc                            <  1:4913795/35‑1 (MQ=255)
        gTCAGCGGATTAATACCTTTTTCGCCAAATGCCAc                            >  1:3641324/1‑35 (MQ=255)
        gTCAGCGGATTAATACCTTTTTCGCCAAATGCCAc                            <  1:6415502/35‑1 (MQ=255)
         tCAGCGGATTAATACCTTTTTCGCCAAATGCCAcn                           <  1:10177733/35‑1 (MQ=255)
          cAGCGGATTAATACCTTTTTCGCCAAATGCCAccc                          <  1:8245581/35‑1 (MQ=255)
          cAGCGGATTAATACCTTTTTCGCCAAATGCCAccc                          >  1:8345568/1‑35 (MQ=255)
          cAGCGGATTAATACCTTTTCCGCCAAATGCCAccc                          >  1:4698449/1‑35 (MQ=255)
           aGCGGATTAATACCTTTTTCGCCAAATGCCAcccc                         >  1:16242592/1‑35 (MQ=255)
            gCGGATTAATACCTTTTTCGCCAAATGCCACCCca                        <  1:9805997/35‑1 (MQ=255)
            gCGGATTAATACCTTTTTCGCCAAATGCCACCCca                        >  1:10879686/1‑35 (MQ=255)
             cGGATTAATACCTTTTTCGCCAAATGCCACCCcat                       >  1:15068570/1‑35 (MQ=255)
             cGGATTAATACCTTTTTCGCCAAATGCCACCCcat                       >  1:6803893/1‑35 (MQ=255)
                aTTAATACCTTTTTCGCCAAATGCCACCCcataca                    >  1:8979483/1‑35 (MQ=255)
                 ttAATACCTTTTTCGCCAAATGCCACCCcatacat                   <  1:13364321/35‑1 (MQ=255)
                 ttAATACCTTTTTCGCCAAATGCCACCCcatacat                   <  1:4324046/35‑1 (MQ=255)
                 ttAATACCTTTTTCGCCAAATGCCACCCcatacat                   >  1:16305240/1‑35 (MQ=255)
                 ttAATACCTTTTTCGCCAAATGCCACCCcatacat                   <  1:17088200/35‑1 (MQ=255)
                 caaataCCTTTTTCGCCAgtaactttggccgttat                   <  1:18448402‑M1/33‑18 (MQ=255)
                  tAATACCTTTTTCGCCAAATGCCACCCcatacata                  <  1:4396261/35‑1 (MQ=255)
                  tAATACCTTTTTAGCCAAATGCCACCCcatacata                  >  1:18608333/1‑35 (MQ=255)
                  aaatACCTTTTTCGCCAgtaactttggccgttatg                  <  1:19699406‑M1/34‑19 (MQ=255)
                  aaatAACTTTTTCGCCAgtaactttggccgttatg                  <  1:3771477‑M1/34‑19 (MQ=255)
                   aaTACTTTTTTCGCCAgtaactttggccgttatgc                 <  1:8569694‑M1/35‑20 (MQ=255)
                   aaTACCTTTTTCGCCAAATGCCACCCcatacataa                 >  1:9900517/1‑34 (MQ=255)
                   aaTACCTTTTTCGCCAAATGCCACCCCATACATAg                 <  1:7358923/35‑1 (MQ=255)
                   aaTACCTTTTTCGCCAAATGCCACCCCATACATAg                 <  1:20459908/35‑1 (MQ=255)
                   aaTACCTTTTTCGCCAAATGCCACCCCATACATAg                 <  1:5927112/35‑1 (MQ=255)
                   aaTACCTTTTTCGCCAAATGCCACCCCATACATAg                 <  1:16787048/35‑1 (MQ=255)
                    aTACCTTTTTCGCCAgtaactttggccgttatgct                <  1:5219984‑M1/35‑21 (MQ=255)
                    aTACCTTTTTCGCCAAATGCCACCCCATACATAGt                >  1:12831093/1‑35 (MQ=255)
                    aTACCTTTTTCGCCAAATGCCACCCCATACATAGt                <  1:16915869/35‑1 (MQ=255)
                     tACCTTTTTCGCCAAATGCCACCCCATACATAGTa               >  1:11460741/1‑35 (MQ=255)
                     tACCTTTTTCGCCAAATGCCACCCCATACATAGTa               <  1:3269319/35‑1 (MQ=255)
                     tACCTTTTTCGCCAAATGCCACCCCATACATAGTa               <  1:13606290/35‑1 (MQ=255)
                     tACCTTTTTCGCCAAATGCCACCCCATACATAGTa               >  1:10188751/1‑35 (MQ=255)
                     tACCTTTTTCGCCAAATGCCACCCCATACATAGTa               >  1:12665288/1‑35 (MQ=255)
                     tACCTCTTTCGCCAgtaactttggccgttatgctg               <  1:5926643‑M1/35‑22 (MQ=255)
                      aacttTTTCGCCAgtaactttggccgttatgctgg              <  1:17470844‑M1/33‑23 (MQ=255)
                      aCCTTTTTCGCCAgtaactttggccgttatgctgg              <  1:6103116‑M1/35‑23 (MQ=255)
                      aCCTTTTTCGCCAAATGCCACCCCATACATAGTAt              <  1:15350349/35‑1 (MQ=255)
                      aCCTTTTTCGCCAAATGCCACCCCATACATAGTAt              <  1:2703299/35‑1 (MQ=255)
                      aCCTTTTTCGCCAAATGCCACCCCATACATAGTAt              <  1:4515762/35‑1 (MQ=255)
                      aCCTTTTTCGCCAAATGCCACCCCATACATAGTAt              <  1:12404701/35‑1 (MQ=255)
                      aCCTCTTTCGCCAgtaactttggccgttatgctgg              <  1:9666948‑M1/35‑23 (MQ=255)
                       ccTTTTTCGCCAAATGCCACCCCATACATAGTATc             <  1:4550071/35‑1 (MQ=255)
                       ccTTTTTCGCCAAATGCCACCCCATACATAGTATc             >  1:556486/1‑35 (MQ=255)
                       ccTTTTTCGCCAAATGCCACCCCATACATAGTATc             >  1:17619839/1‑35 (MQ=255)
                        ctctttcgcCAgtaactttggccgttatgctggcg            <  1:10199160‑M1/32‑25 (MQ=255)
                        cTTTTTCGCCAgtaactttggccgttatgctggcg            <  1:7147422‑M1/35‑25 (MQ=255)
                        cTTTTTCGCCAAATGCCACCCCATACATAGTATCa            <  1:3849845/35‑1 (MQ=255)
                        cTTTTTCGCCAAATGCCACCCCATACATAGTATCa            <  1:1104542/35‑1 (MQ=255)
                        cTTTTTCGCCAAATGCCACCCCATACATAGTATCa            <  1:120257/35‑1 (MQ=255)
                         tttttCGCCAAATGCCACCCCATACATAGTATCaa           <  1:9839656/35‑1 (MQ=255)
                          ttttCGCCAgtaactttggccgttatgctggcgca          <  1:17317863‑M1/35‑27 (MQ=255)
                          ttttCGCCAAATGCCACCCCATACATAGTATCAAc          <  1:3213295/35‑1 (MQ=255)
                          ttttCGCCAAATGCCACCCCATACATAGTATCAAc          <  1:19018468/35‑1 (MQ=255)
                           tttCGCCAgtaactttggccgttatgctggcgcaa         <  1:13961320‑M1/35‑28 (MQ=255)
                           tttCGCCAgtaactttggccgttatgctggcgcaa         <  1:13106335‑M1/35‑28 (MQ=255)
                           tttCGCCAAATGCCACCCCATACATAGTATCAACg         <  1:1846907/35‑1 (MQ=255)
                            ttCGCCAgtaactttggccgttatgctggcgcaag        <  1:19282223‑M1/35‑29 (MQ=255)
                            ttCGCCAAATGCCACCCCATACATAGTATCAACGc        >  1:1081018/1‑35 (MQ=255)
                             tCGCCAgtaactttggccgttatgctggcgcaagt       <  1:5336511‑M1/35‑30 (MQ=255)
                             tCGCCAAATGCCACCCCATACATAGTATCAACGcc       >  1:14076987/1‑35 (MQ=255)
                             tCGCCAAATGCCACCCCATACATAGTATCAACGcc       >  1:9801697/1‑35 (MQ=255)
                             tCGCCAAATGCCACCCCATACATAGTATCAACGcc       <  1:16596445/35‑1 (MQ=255)
                              cGCCAgtaactttggccgttatgctggcgcaagtc      <  1:15704406‑M1/35‑31 (MQ=255)
                              cGCCAAATGCCACCCCATACATAGTATCAACGcct      >  1:2438979/1‑34 (MQ=255)
                              cGCCAAATGCCACCCCATACATAGTATCAACGCCg      <  1:18891353/35‑1 (MQ=255)
                              cGCCAAATGCCACCCCATACATAGTATCAACGCCg      <  1:16172359/35‑1 (MQ=255)
                               gCCAgtaactttggccgttatgctggcgcaagtcc     <  1:7624693‑M1/35‑32 (MQ=255)
                               gCCAAATGCCCCCCCATACATAGTATCAACGCCGa     <  1:15730756/35‑1 (MQ=255)
                               gCCAAATGCCACCCCATACATAGTATCAACGCCGa     <  1:2398591/35‑1 (MQ=255)
                               gCCAAATGCCACCCCATACATAGTATCAACGCCGa     <  1:8155131/35‑1 (MQ=255)
                               cccAAAAGCCCCCCCATACATATTATCAACGCCGa     <  1:20118539/34‑1 (MQ=25)
                                 cAgtaactttggccgttatgctggcgcaagtccat   <  1:9198563‑M1/35‑34 (MQ=255)
                                 cAgtaactttggccgttatgctggcgcaagtccat   <  1:3366782‑M1/35‑34 (MQ=255)
                                 cAAATTCCACCCCATACATAGTATCAACGCCGACa   >  1:2215703/1‑35 (MQ=255)
                                 cAAATGCCACCCCATACATAGTATCAACGCCGACa   >  1:7039417/1‑35 (MQ=255)
                                  agtaactttggccgttatgctggcgcaagtccatt  <  1:16946738‑M1/35‑35 (MQ=255)
                                  agtaactttggccgttatgctggcgcaagtccatt  <  1:13255478‑M1/35‑35 (MQ=255)
                                  agtaactttggccgttatgctggcgcaagtccatt  <  1:10525088‑M1/35‑35 (MQ=255)
                                  aaaTGCCACCCCATACATAGTATCAACGCCGACAt  <  1:2756301/35‑1 (MQ=255)
                                  aaaTGCCACCCCATACATAGTATCAACGCCGACAt  >  1:2037713/1‑35 (MQ=255)
                                  |                                  
AGGTTCTGGTCAGCGGATTAATACCTTTTTCGCCAAATGCCACCCCATACATAGTATCAACGCCGACAT  >  REL606/3743986‑3744054

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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.