New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 734239 =59 (0.570)18 (0.180) 6/48 NT 29.0% coding (1021/1284 nt) gltA citrate synthase
?REL606 1556579 = 29 (0.280)intergenic (‑104/+298) ydeN/ydeO hypothetical protein/predicted DNA‑binding transcriptional acfivator

AAGTTAGTCACATAAAGAGATAGCAGATTTAGCTAAAAAAAGGGAAATAACAGTCCATAAAGCGTTGAC  >  REL606/1556545‑1556613
                                  |                                  
ctgggcacgaaggatgacctgctggaagtggctaa                                    >  1:9766914‑M2/35‑35 (MQ=255)
ctgggcacgaaggatgacctgctggaagtggctaa                                    >  1:4851503‑M2/35‑35 (MQ=255)
ctgggcacaaaggatgacctgctggaagtggctaa                                    >  1:19130757‑M2/35‑35 (MQ=255)
aaGTTAGTCACATAAAGAGATAGCAGATTTAGCTa                                    <  1:6285453/35‑1 (MQ=255)
aaGTTAGTCACATAAAGAGATAGCAGATTTAGCTa                                    <  1:329276/35‑1 (MQ=255)
aaGTTAGTCACATAAAGAGATAGCAGATTTAGCTa                                    <  1:19561541/35‑1 (MQ=255)
aaGTTAGTCACATAAAGAGATAGCAGATTTAGCTa                                    >  1:6657668/1‑35 (MQ=255)
aaGTTAGTCACATAAAGAGATAGCAGATTTAGCTa                                    <  1:14085723/35‑1 (MQ=255)
 tgggcacgaaggatgacctgctggaagtggctaaa                                   >  1:5725825‑M2/34‑35 (MQ=255)
 tgggcacgaaggatgacctgctggaagtggctaaa                                   >  1:3419595‑M2/34‑35 (MQ=255)
 tgggcacgaaggatgacctgctggaagtggctaaa                                   >  1:16176944‑M2/34‑35 (MQ=255)
 tgggcacgaaggatgacctgctggaagtggctaaa                                   >  1:12812535‑M2/34‑35 (MQ=255)
 aGTTATTCACATAAAGAGATAGCAGATTTAGCTaa                                   <  1:12717219/35‑1 (MQ=255)
 aGTTAGTCACATAAAGAGATAGCAGATTTAGCTaa                                   <  1:19863975/35‑1 (MQ=255)
 aGTTAGTCACATAAAGAGATAGCAGATTTAGCTaa                                   <  1:1490379/35‑1 (MQ=255)
 aGTTAGTCACATAAAGAGATAGCAGATTTAGCTaa                                   <  1:18790403/35‑1 (MQ=255)
  gggcacgaaggatgacctgctggaagtggctaaaa                                  >  1:14204160‑M2/33‑35 (MQ=255)
  gTTAGTCACATAAAGAGATAGCAGATTTAGCTaaa                                  >  1:8367586/1‑35 (MQ=255)
   ttAGTCACATAAAGAGATAGCAGATTTAGCTaaaa                                 >  1:3277523/1‑35 (MQ=255)
   ttAGTCACATAAAGAGATAGCAGATTTAGCTaaaa                                 >  1:1897956/1‑35 (MQ=255)
   ttAGTCACATAAAGAGATAGCAGATTTAGCTaaaa                                 >  1:13872514/1‑35 (MQ=255)
   ggcacgaaggatgacctgctggaagtggctaaaaa                                 >  1:7722065‑M2/32‑35 (MQ=255)
    tAGTCACATAAAGAGATAGCAGATTTAGCTaaaaa                                <  1:18457242/35‑1 (MQ=255)
    tAGTCACATAAAGAGATAGCAGATTTAGCTaaaaa                                <  1:16144655/35‑1 (MQ=255)
    gcacgaaggatgacctgctggaagtggctaaaaaa                                >  1:256071‑M2/31‑35 (MQ=255)
     cacgaaggatgacctgctggaagtggctaaaaaga                               >  1:11515633‑M2/30‑33 (MQ=255)
     cacgaaggatgacctgctggaagtggctaaaaaaa                               >  1:5806688‑M2/30‑35 (MQ=255)
     cacgaaggatgacctgctggaagtggctaaaaaaa                               >  1:9510464‑M2/30‑35 (MQ=255)
     cacgaaggatgacctgctggaagtggctaaaaaaa                               >  1:16940476‑M2/30‑35 (MQ=255)
     cacgaaggatgacctgctggaagtggctaaaaaaa                               >  1:13001542‑M2/30‑35 (MQ=255)
      gTCACATAAAGAGATAGCAGATTTAGCTaaaaaaa                              >  1:2788155/1‑35 (MQ=255)
      acgaaggatgacctgctggaagtggctaaaaagaa                              >  1:15601973‑M2/29‑35 (MQ=255)
      acgaaggatgacctgctggaagtggctaaaaaaaa                              >  1:6120905‑M2/29‑35 (MQ=255)
       tCACATAAAGAGATAGCAGATTTAGCTaaaaaagg                             <  1:1304798/35‑3 (MQ=255)
       cgaaggatgacctgctggaagtggctaaaaaaaaa                             >  1:9095395‑M2/28‑34 (MQ=255)
       cgaaggatgacctgctggaagtggctaAAAAAAAg                             >  1:17533132‑M2/28‑35 (MQ=255)
        cacaTAAAGAGATAGCAGATTTAGCTAAAAAAAgg                            <  1:19749627/35‑1 (MQ=255)
        cacaTAAAGAGATAGCAGATTTAGCTAAAAAAAgg                            <  1:17858688/35‑1 (MQ=255)
        cacaTAAAGAGATAGCAGATTTAGCTAAAAAAAgg                            >  1:3674320/1‑35 (MQ=255)
         acaTAAAGAGATAGCAGATTTAGCTAAAAAAAggg                           >  1:18579728/1‑35 (MQ=255)
         acaTAAAGAGATAGCAGATTTAGCTAAAAAAAggg                           >  1:17878378/1‑35 (MQ=255)
         aaggatgacctgctggaagtggctaAAAAAGagga                           >  1:912370‑M2/26‑34 (MQ=255)
         aaggatgacctgctggaagtggctaAAAAAGAggg                           >  1:13719390‑M2/26‑35 (MQ=255)
         aaggatgacctgctggaagtggctaAAAAAAGggg                           >  1:18182106‑M2/26‑35 (MQ=255)
           aTAAAGAGATAGCAGATTTAGCTAAAAAAAGGGaa                         >  1:19413722/1‑35 (MQ=255)
           aTAAAGAGATAGCAGATTTAGCTAAAAAAAGGGaa                         >  1:18058722/1‑35 (MQ=255)
            tAAAGAGATAGCAGATTTAGCTAAAAAAAGGGaaa                        <  1:10231030/35‑1 (MQ=255)
            gatgacctgctggaagtggctaAAAAAAGGGGaaa                        >  1:12733759‑M2/23‑35 (MQ=255)
            gatgacctgctggaagtggctaAAAAAAAGGGaaa                        >  1:740683‑M2/23‑35 (MQ=255)
            gatgacctgctggaagtggctaAAAAAAAAGGaaa                        >  1:10771‑M2/23‑35 (MQ=255)
             atgacctgctggaagtggctaAAAAAAAGGgaaaa                       >  1:2789605‑M2/22‑34 (MQ=255)
             atgacctgctggaagtggctaAAAAAAAGGgaaaa                       >  1:7359520‑M2/22‑34 (MQ=255)
             aaaGAGATAGCAGATTTAGCTAAAAAAAGGGAAAt                       >  1:4438776/1‑35 (MQ=255)
              tgacctgctggaagtggctaAAAAAAAGggaaaaa                      >  1:8491449‑M2/21‑33 (MQ=255)
              aaGAGATAGCAGATTTAGCTAAAAAAAGGGAAATa                      <  1:12441915/35‑1 (MQ=255)
              aaGAGATAGCAGATTTAGCTAAAAAAAGGGAAATa                      >  1:15862915/1‑35 (MQ=255)
               gacctgctggaagtggctaAAAAAAAGGGAAAAaa                     >  1:1525721‑M2/20‑35 (MQ=255)
               agagATAGCAGATTTAGCTAAAAAAAGGGAAATaa                     >  1:17705843/1‑35 (MQ=255)
                gagaTAGCAGATTTAGCTAAAAAAAGGGAAATAAc                    <  1:4094514/35‑1 (MQ=255)
                  gaTAGCAGATTTAGCTAAAAAAAGGGAAATAACAg                  >  1:10009258/1‑35 (MQ=255)
                   aTAGCAGATTTAGCTAAAAAAAGGGAAATAACAGt                 <  1:332218/35‑1 (MQ=255)
                   aTAGCAGATTTAGCTAAAAAAAGGGAAATAACAGt                 <  1:17855724/35‑1 (MQ=255)
                   aTAGCAGATTTAGCTAAAAAAAGGGAAATAACAGt                 <  1:9161699/35‑1 (MQ=255)
                      gCAGATTTAGCTAAAAAAAGGGAAATAACAGTCCa              >  1:4960472/1‑35 (MQ=255)
                      gCAGATTTAGCTAAAAAAAGGGAAATAACAGTCCa              >  1:12751139/1‑35 (MQ=255)
                       cAGATTTAGCTAAAAAAAGGGAAATAACAGTCCAt             <  1:4810098/35‑1 (MQ=255)
                       cAGATTTAGCTAAAAAAAGGGAAATAACAGTCCAt             >  1:10299290/1‑35 (MQ=255)
                       cAGATTTAGCTAAAAAAAGGGAAATAACAGTCCAt             <  1:16494274/35‑1 (MQ=255)
                       cAGATTTAGCTAAAAAAAGGGAAATAACAGTCCAt             <  1:1251243/35‑1 (MQ=255)
                        aGATTTAGCTAAAAAAAGGGAAATAACAGTCCATa            <  1:14261348/35‑1 (MQ=255)
                        aGATTTAGCTAAAAAAAGGGAAATAACAGTCCATa            <  1:1649023/35‑1 (MQ=255)
                         gATTTAGCTAAAAAAAGGGAAATAACAGTCCATaa           >  1:18929326/1‑35 (MQ=255)
                           tttAGCTAAAAAAAGGGAAATAACAGTCCATAAAg         <  1:5717349/35‑1 (MQ=255)
                                cTAAAAAAAGGGAAATAACAGTCCATAAAGCGTTg    <  1:1199236/35‑1 (MQ=255)
                                 tAAAAAAAGGGAAATAACAGTCCATAAAGCGTTGa   >  1:9162881/1‑35 (MQ=255)
                                 tAAAAAAAGGGAAATAACAGTCCATAAAGCGTTGa   <  1:9334881/35‑1 (MQ=255)
                                  aaaaaaaGGGAAATAACAGTCCATAAAGCGTTGAc  <  1:7455478/35‑1 (MQ=255)
                                  |                                  
AAGTTAGTCACATAAAGAGATAGCAGATTTAGCTAAAAAAAGGGAAATAACAGTCCATAAAGCGTTGAC  >  REL606/1556545‑1556613

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ 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.