New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 456653 =60 (0.580)11 (0.140) 4/36 NT 17.7% coding (1034/1194 nt) acrA multidrug efflux system
?REL606 3845122 = 57 (0.740)coding (269/360 nt) rnpA ribonuclease P

Only 100 of 131 total aligned reads displayed.

GAACTCCCGGCTATGGATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTCGATAACCGTGCTCTC  >  REL606/3845088‑3845156
                                   |                                  
gAACTCCCGGCTATGGATTTCGTGGTGGTGGCGaa                                    <  1:14644127/35‑1 (MQ=255)
gAACTCCCGGCTATGGATTTCGTGGTGGTGGCGaa                                    <  1:14608646/35‑1 (MQ=255)
gAACTCCCGGCTATGGATTTCGTGGTGGTGGCGaa                                    <  1:12842796/35‑1 (MQ=255)
gAACTCCCGGCTATGGATTTCGTGGTGGTGGCGaa                                    <  1:19384056/35‑1 (MQ=255)
 cccgtccgatcgttgcaagccaggctattggggaa                                    >  1:4517363‑M2/35‑35 (MQ=255)
 cccgtccgatcgttgcaagccaggctattggggaa                                    >  1:11506053‑M2/35‑35 (MQ=255)
 aaCTCCCGGCTATGGATTTCGTGGTGGTGGCGaaa                                   <  1:15003845/35‑1 (MQ=255)
 aaCTCCCGGCTATGGATTTCGTGGTGGTGGCGaaa                                   <  1:17687942/35‑1 (MQ=255)
 aaCTCACGGCTATGGATTTCGTGGTGGTGGAGaaa                                   <  1:16153009/35‑1 (MQ=25)
   cTCCCGGCTATGGATTTCGTGGTGGTGGCGaaaaa                                 <  1:985033/35‑1 (MQ=255)
    tCCCGGCTATGGATTTCGTGGTGGTGGCGaaaaaa                                <  1:13004228/35‑1 (MQ=255)
    tCCCGGCTATGGATTTCGTGGTGGTGGCGaaaaaa                                <  1:17924114/35‑1 (MQ=255)
    gtccgatcgttgcaagccaggctattggggaaaaa                                 >  1:1425021‑M2/32‑35 (MQ=255)
    gtccgatcgttgcaagccaggctattggcgaaaaa                                 >  1:573503‑M2/32‑35 (MQ=255)
     tccgatcgttgcaagccaggctattggggaaaaag                                >  1:10555442‑M2/31‑34 (MQ=255)
     tccgatcgttgcaagccaggctattggggaaaaaa                                >  1:16859102‑M2/31‑35 (MQ=255)
     tccgatcgttgcaagccaggctattggcgaaaaga                                >  1:17390382‑M2/31‑33 (MQ=255)
     cccTGCTATGGATTTCGTGGTGGGGGGGgaaaaaa                               >  1:18579646/1‑34 (MQ=16)
      ccgatcgttgcaagccaggctattggcggAAAAAg                               >  1:15457069‑M2/30‑35 (MQ=255)
      ccGGCTATGGATTTCGTGGTGGTGGCGAAAAAAgg                              <  1:19830622/35‑1 (MQ=255)
      ccGGCTATGGATTTCGTGGTGGTGGCGAAAAAAgg                              <  1:19634206/35‑1 (MQ=255)
      ccGGCTATGGATTTAGTGGTGGTGGCGAAAAAAgg                              <  1:16806035/35‑1 (MQ=255)
       cgatcgttgcaagccaggctattggcgaAAAAAgg                              >  1:14630597‑M2/29‑35 (MQ=255)
       cgatcgttgcaagccaggctattggcgaAAAAAgg                              >  1:9632917‑M2/29‑35 (MQ=255)
       cgatcgttgcaagccaggctattggcgaAAAAAgg                              >  1:18480873‑M2/29‑35 (MQ=255)
        ggCTATGGATTTCGTGGTGGTGGCGAAAAAAgggg                            <  1:18499087/35‑1 (MQ=255)
        ggCTATGGATTTCGTGGTGGTGGCGAAAAAAgggg                            <  1:2452710/35‑1 (MQ=255)
        ggCTATGGATTTCGTGGGGGGGGGGGGAAAAaggg                            >  1:17825295/1‑35 (MQ=9)
        gatcgttgcaagccaggctattggcgaAAAAAggg                             >  1:8251926‑M2/28‑35 (MQ=255)
         gCTATGGATTTCGTGGTGGGGGGGGGAAAAAgggg                            >  1:4415897/1‑35 (MQ=12)
         gCTATGGATTTCGTGGTGGTGGCGAAAAAAGGGGt                           <  1:8333239/35‑1 (MQ=255)
         atcgtttcaagccaggctattggcgaAAAAagggt                            >  1:8543281‑M2/27‑34 (MQ=255)
         atcgttgcaagccaggctattggcggAAAAAgggg                            >  1:1002709‑M2/27‑35 (MQ=255)
          cTATGGATTTCGTGGTGGGGGGGGAAAAAAGGGGt                           >  1:1923491/1‑35 (MQ=19)
          cTATGGATTTCGTGGTGGTGGCGAAAAAAGGGGtt                          <  1:11100792/35‑1 (MQ=255)
           tATGGATTTCGTGGTGGGGGGGGAAAAAAgggggg                          >  1:11572480/1‑33 (MQ=16)
           tATGGATTTCGTGGTGGGGGGGGAAAAAAGGGGtg                          >  1:9926023/1‑34 (MQ=16)
           tATGGATTTCGTGGTGGTGGCGAAAAAAGGGGTTg                         <  1:9393496/35‑1 (MQ=255)
           tATGGATTTCGTGGTGGTGGCGAAAAAAGGGGTTg                         <  1:16534763/35‑1 (MQ=255)
           cgttgcaagccaggctattggcgaAAAaagggggg                          >  1:4000148‑M2/25‑33 (MQ=255)
            aTGGATTTCGTGGTGGGGGGGGAAAAAAggggcgg                         >  1:20344807/1‑32 (MQ=12)
            aTGGATTTCGTGGTGGGGGGGGAAAAAAGGGGtgg                         >  1:9918356/1‑33 (MQ=16)
            aTGGATTTCGTGGTGGGGGGGGAAAAAAGGGGtgc                         >  1:727208/1‑33 (MQ=16)
             tGGATTTCGTGGTGGTGGCGAAAAAAGGGGTTGcc                       <  1:394862/35‑1 (MQ=255)
              ggATTTCGTGGTGGGGGGGGGAAAAAGGGGTGGcg                       >  1:7167220/1‑34 (MQ=2)
              ggATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCg                      <  1:12017882/35‑1 (MQ=255)
              ggATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCg                      <  1:18205740/35‑1 (MQ=255)
              ggATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCg                      <  1:2095603/35‑1 (MQ=255)
              ggATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCg                      <  1:5186691/35‑1 (MQ=255)
              ggATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCg                      <  1:6089357/35‑1 (MQ=255)
              ggATTTCGTGGTGGGGGGGGGAAAAGGGGGTGGCg                      >  1:19263112/1‑35 (MQ=9)
               gATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCGa                     <  1:637585/35‑1 (MQ=255)
               gATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCGa                     <  1:11543461/35‑1 (MQ=255)
                aTTTCGTGGTGGGGGGGGAAAAAAGGGGTGGcggc                     >  1:12454078/1‑32 (MQ=9)
                 tttCGTGGTGGTGGCGAAAAAAGGGGTTGCCGAcc                   <  1:11056110/35‑1 (MQ=255)
                  ttCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCt                  <  1:3251353/35‑1 (MQ=255)
                  ttCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCt                  <  1:10894210/35‑1 (MQ=255)
                  ttCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCt                  <  1:12107691/35‑1 (MQ=255)
                   tCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTc                 <  1:14681889/35‑1 (MQ=255)
                   tCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTc                 <  1:15340529/35‑1 (MQ=255)
                   tCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTc                 <  1:15545067/35‑1 (MQ=255)
                   tCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTc                 <  1:16116150/35‑1 (MQ=255)
                    cGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTCg                <  1:8531677/35‑1 (MQ=255)
                    cGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTCg                <  1:8402301/35‑1 (MQ=255)
                    cGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTCg                <  1:5471219/35‑1 (MQ=255)
                    cGTGGTGGGGGGGGAAAAAAGGGGTGCCGGCCTcc                >  1:17563641/1‑34 (MQ=255)
                     gtggtggtgGCGAAAAAAGGGGTTGCCGACCTCGa               <  1:14266074/35‑1 (MQ=255)
                     gtggtggtgGCGAAAAAAGGGGTTGCCGACCTCGa               <  1:4565721/35‑1 (MQ=255)
                     gtggtggtgGCGAAAAAAGGGGTTGCCGACCTCGa               <  1:19269181/35‑1 (MQ=255)
                      tggtggtggCGAAAAAAGGGGTTGCCGACCTCGAt              <  1:8703337/35‑1 (MQ=255)
                       ggtggtggCGAAAAAAGGGGTTGCCGCCCTCGATa             <  1:11260382/35‑1 (MQ=255)
                       ggtggtggCGAAAAAAGGGGTTGCCGACCTCGATa             <  1:14159645/35‑1 (MQ=255)
                       ggtggtggCGAAAAAAGGGGTTGCCGAACTCCATa             >  1:328786/1‑35 (MQ=37)
                        gtggtggCGAAAAAAGGGGTTGCCGCCCTCGATaa            >  1:3603685/1‑35 (MQ=255)
                        gtggtggCGAAAAAAGGGGTTGCCGACCTCGATaa            <  1:14964593/35‑1 (MQ=255)
                         tggtggCGAAAAAAGGGGTTGCCGACCTCGATAAc           >  1:16131334/1‑35 (MQ=255)
                         tggtggCGAAAAAAGGGGTTGCCGACCTCGATAAc           <  1:2238207/35‑1 (MQ=255)
                           ggtggCGAAAAAAGGGGTTGCCGACCTCGATAAcc          >  1:13963073/1‑35 (MQ=255)
                           ggtggCGAAAAAAGGGGTTGCCGACCTCGATAAcc          >  1:10969429/1‑35 (MQ=255)
                           ggtggCGAAAAAAGGGGTTGCCGACCTCGATAAcc          >  1:10990293/1‑35 (MQ=255)
                           ggtggCGAAAAAAGGGGTTGCCGACCTCGATAAcc          >  1:13649464/1‑35 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCTCGATAACCg         <  1:9697943/35‑1 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCTCGATAACCg         >  1:12801995/1‑35 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCTCGATAACCg         >  1:16460235/1‑35 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCTCGATAACCg         >  1:11004393/1‑35 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCTCGATAACCg         >  1:15878177/1‑35 (MQ=255)
                            gtggCGAAAAAAGGGGTTGCCGACCCCGATAACCg         >  1:4213342/1‑35 (MQ=255)
                             tggcgaAAAAAGGGGTTGCCGACCTCGATAACCGt        >  1:6811869‑M2/7‑35 (MQ=255)
                              ggcgaAAAAAGGGGTTGCCGCCCTCGATAACCGTg       <  1:7465864‑M2/30‑1 (MQ=255)
                              ggcgaAAAAAGGGGTTGCCGACCTCGATAACCGTg       >  1:5555636‑M2/6‑35 (MQ=255)
                               gcgaAAAAAGGGGTTGCCGACCTCGATAACCGTGc      >  1:8066372‑M2/5‑35 (MQ=255)
                               gcgaAAAAAGGGGTTGCCGAACTCGATAACCGTGc      >  1:13627546‑M2/5‑35 (MQ=255)
                                cgaAAAAAGGGGTTGCCGCCCTCGATAACCGTGct     <  1:3385861‑M2/32‑1 (MQ=255)
                                cgaAAAAAGGGGTTGCCGACCTCGATAACCGTGct     >  1:10201307‑M2/4‑35 (MQ=255)
                                 gaAAAAAGGGGTTGCCGACCTCGATAACCGTGctc    >  1:7533916‑M2/3‑35 (MQ=255)
                                 gaAAAAAGGGGTTGCCGACCTCGATAACCGTGctc    >  1:13444289‑M2/3‑35 (MQ=255)
                                  aAAAAAGGGGTTGCCGACCTCGATAACCGTGctct   >  1:13678828‑M2/2‑35 (MQ=255)
                                   aaaagGGGGTTGCCGCCCTCGATAACCGTGctctc  <  1:14306569/35‑1 (MQ=37)
                                   aaaaaGGGGTTGCCGACCTCGATAACCGTGctctc  <  1:9298667/35‑1 (MQ=255)
                                   aaaaaGGGGTTGCCGACCTCGATAACCGTGctctc  <  1:14596217/35‑1 (MQ=255)
                                   |                                  
GAACTCCCGGCTATGGATTTCGTGGTGGTGGCGAAAAAAGGGGTTGCCGACCTCGATAACCGTGCTCTC  >  REL606/3845088‑3845156

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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.