New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 3698836 =NA (NA)15 (0.210) 4/34 NT 13.9% coding (1960/4134 nt) rhsA rhsA element core protein RshA
?REL606 3882308 = 131 (1.270)coding (110/816 nt) atpB F0F1 ATP synthase subunit A

Only 100 of 281 total aligned reads displayed.

GAAGAACATGGAGTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCGAGA  >  REL606/3882274‑3882341
                                  |                                 
ccagccggtcaagtacatcgtaacggaaggtggtg                                   <  1:8992625‑M2/1‑1 (MQ=255)
ccagccggtcaagtacatcgtaacggaaggtggtg                                   <  1:8733245‑M2/1‑1 (MQ=255)
 cagccggtcaagtacatcgtaacggaaggttgtgt                                  >  1:18023676‑M2/34‑35 (MQ=255)
 cagccggtcaagtacatcgtaacggaaggtggtgt                                  >  1:12917836‑M2/34‑35 (MQ=255)
 cagccggtcaagtacatcgtaacggaaggtggtgt                                  <  1:18358928‑M2/2‑1 (MQ=255)
 cagccggtcaagtacatcgtaacggaaggtggtgt                                  <  1:7173737‑M2/2‑1 (MQ=255)
 cagccggtcaagtacatcgtaaccgaaggtggtgt                                  >  1:956072‑M2/34‑35 (MQ=255)
 aagaaCATTGAGTCAATATTGATTGTCCAGAAGGt                                  >  1:2663318/1‑35 (MQ=255)
  agccggtcaagtacatcgtaacggaaggtggtgtg                                 <  1:7809977‑M2/3‑1 (MQ=255)
  agccggtcaagtacatcgtaacggaaggtggtgtg                                 <  1:6141939‑M2/3‑1 (MQ=255)
  agccggtcaagtacatcgtaacggaaggtggtgtg                                 >  1:4732078‑M2/33‑35 (MQ=255)
  agccggtcaagtacatcgtaacggaaggtggtgtg                                 <  1:15597890‑M2/3‑1 (MQ=255)
  agccggtcaagtacatcgtaacggaaggtggtgtg                                 >  1:17373553‑M2/33‑35 (MQ=255)
  agccggtcaagtacatcgtaacggaagggggtgtg                                 >  1:3982990‑M2/33‑35 (MQ=255)
   gccggtcaagtacatcgtaacggaaggtggtGTgg                                <  1:20371721‑M2/4‑1 (MQ=255)
   gaaCATGGAGTCAATATTGATTGTCCAGAAGGTgg                                >  1:16238874/1‑35 (MQ=255)
   gaaCATGGAGTCAATATTGATTGTCCAGAAGGTgg                                <  1:5628687/35‑1 (MQ=255)
    ccggtcaagtacatcgtaacggaaggtggtGTGGc                               <  1:11262100‑M2/5‑1 (MQ=255)
    ccggtcaagtacatcgtaacggaaggtggtGTGGc                               <  1:15668116‑M2/5‑1 (MQ=255)
    ccggtcaagtacatcgtaacggaaggtggtGTGGc                               <  1:10621299‑M2/5‑1 (MQ=255)
    ccggtcaagtacatcgtaacggaaggtggtGTGGc                               <  1:20414773‑M2/5‑1 (MQ=255)
    aaCATGGAGTCAATATTGATTGTCCAGAAGGTGGc                               >  1:3425811/1‑35 (MQ=255)
    aaCATGGAGTAAATATTGATTGTCCAGAAGGTGGc                               <  1:17570903/35‑1 (MQ=255)
     cggtcaagtacatcgtaacggaaggtggtGTGGCt                              <  1:255831‑M2/6‑1 (MQ=255)
     aCATGGAGTCAATATTGATTGTCCAGAAGGTGGCt                              >  1:11555794/1‑35 (MQ=255)
     aCATGGAGTCAATATTGATTGTCCAGAAGGTGGCt                              >  1:16872720/1‑35 (MQ=255)
      ggtcaagtacatcgtaacggaaggtggtGTGGCTg                             <  1:3090526‑M2/7‑1 (MQ=255)
      ggtcaagtacatcgtaacggaaggtggtGTGGCTg                             <  1:19219862‑M2/7‑1 (MQ=255)
      ggtcaagtacatcgtaacggaaggtggtGTGGCTg                             >  1:9312470‑M2/29‑35 (MQ=255)
      cATGGAGTCAATATTGATTGTCCAGAAGGTGGCTg                             >  1:1320938/1‑35 (MQ=255)
      cATGGAGTCAATATTGATTGTCCAGAAGGTGGCTg                             >  1:1908773/1‑35 (MQ=255)
      cATGGAGTCAATATTGATTGTCCAGAAGGTGGCTg                             <  1:10915671/35‑1 (MQ=255)
      cATGGAGTCAATATTGATTGTCCAGAAGGGGGCtt                             >  1:17233781/1‑34 (MQ=255)
       gtcaagtacatcgtaacggaaggtggtGTGGCTgg                            >  1:4593393‑M2/28‑35 (MQ=255)
       gtcaagtacatcgtaacggaaggtggtGTGGCTgg                            >  1:9877530‑M2/28‑35 (MQ=255)
        tcaagtacatcgtaacggaaggtggtGTGGCTggg                           >  1:2177594‑M2/27‑35 (MQ=255)
        tcaagtacatcgtaacggaaggtggtGTGGCTggg                           >  1:18230103‑M2/27‑35 (MQ=255)
        tcaagtacatcgtaacggaaggtggtGTGGCTggg                           >  1:10045598‑M2/27‑35 (MQ=255)
        tcaagtacatcgtaacggaaggtggtGTGGCTggg                           >  1:16539336‑M2/27‑35 (MQ=255)
        tGGAGTCAATATTGATTGTCCAGAAGGGGGCTggg                           >  1:17710355/1‑35 (MQ=255)
         ggAGTCAATATTGATTGTCCAGAAGGTGGCTgggg                          >  1:14582167/1‑35 (MQ=255)
         ggAGTCAATATTGATTGTCCAGAAGGTGGCTgggg                          <  1:9128284/35‑1 (MQ=255)
         caagtacatcgtaacggaaggtggtGTGGCTgggg                          >  1:20253491‑M2/26‑35 (MQ=255)
          nagtacatcgtaacggaaggtggtGTGGCTggggg                         >  1:7142801‑M2/25‑35 (MQ=255)
          gAGTCAATATTGATTGTCCAGAAGGTGGCTggggg                         >  1:7007562/1‑35 (MQ=255)
           aGTCAATATTGATTGTCCAGAAGGTGGGTgggggg                        <  1:4414568/35‑1 (MQ=255)
           aGTCAATATTGATTGTCCAGAAGGTGGCTgggggg                        <  1:6054748/35‑1 (MQ=255)
            gTCAATATTGATTGTCGAGAAGGGGGCTggggggg                       >  1:494228/1‑34 (MQ=37)
            gTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGt                       <  1:9368952/35‑1 (MQ=255)
             tCAATATTGATTGTCCAGAAGGTGGCTGGGGGGtt                      >  1:2953384/1‑35 (MQ=255)
             tCAATATTGATTGTCCAGAAGGTGGCTGGGGGGtt                      <  1:12078352/35‑1 (MQ=255)
             tCAATATTGATTGTCAAGAAGGTGGCTGGGGGGtt                      <  1:3052333/35‑1 (MQ=255)
              cAATATTGATTGTCCAGAAGGTGGCTGGGGGGttt                     <  1:4240004/35‑1 (MQ=255)
              cAATATTGATTGTCCAGAAGGTGGCTGGGGGGttt                     >  1:15799152/1‑35 (MQ=255)
              cAATATTGATTGTCCAGAAGGTGGCTGGGGGGttt                     <  1:10141837/35‑1 (MQ=255)
              cAATATTGATTGTCCAGAAGGTGGCTGGGGGGttt                     <  1:5409304/35‑1 (MQ=255)
              acatcgtaacggaaggtggtGTGGCTGGGGGGttt                     >  1:1703037‑M2/21‑35 (MQ=255)
                atcgtaacggaaggtggtGTGGCTGGGGGgttttt                   >  1:11621332‑M2/19‑34 (MQ=255)
                atatTGATTGTCCAGAAGGTGGCTGGGGGGttttt                   >  1:18572220/1‑34 (MQ=255)
                 tatTGATTGTCCAGAAGGTGGCTGGGGGGTTTtgt                  >  1:10906528/1‑35 (MQ=255)
                 tatTGATTGTCCAGAAGGTGGCTGGGGGGTTTtgt                  <  1:19717765/35‑1 (MQ=255)
                  cgtaacggaaggtggtGTGGCTGGGGGGTTTtctg                 >  1:3559942‑M2/17‑35 (MQ=255)
                  attgattgTCCAGAAGGTGGCTGGGGGGTTTtgtg                 >  1:14734834/1‑35 (MQ=255)
                  attgattgTCCAGAAGGTGGCTGGGGGGTTTtgtg                 <  1:11864693/35‑1 (MQ=255)
                  attgattgTCCAGAAGGTGGCTGGGGGGTTTtgtg                 <  1:8537398/35‑1 (MQ=255)
                   ttgattgTCCAGAAGGTGGCTGGGGGGTTTTGTgg                <  1:10665631/35‑1 (MQ=255)
                   ttgattgTCCAGAAGGTGGCTGGGGGGTTTTGTgg                >  1:6308633/1‑35 (MQ=255)
                   ttgattgTCCAGAAGGTGGCTGGGGGGTTTTGTgg                <  1:10862982/35‑1 (MQ=255)
                   ttgattgTCCAGAAGGTGGCTGGGGGGTTTTGTgg                <  1:20127745/35‑1 (MQ=255)
                   gtaacggaaggtggtGTGGCTGGGGGGTTTTCTgg                >  1:12876851‑M2/16‑35 (MQ=255)
                    tgattgTCCAGAAGGTGGCTGGGGGGTTTTGTGGa               >  1:1112173/1‑35 (MQ=255)
                     gattgTCCAGAAGGTGGCTGGGGGGTTTTGTGGAt              >  1:5064562/1‑35 (MQ=255)
                     gattgTCCAGAAGGTGGCTGGGGGGTTTTGTGGAt              >  1:14999282/1‑35 (MQ=255)
                     gattgTCCAGAAGGTGGCTGGGGGGTTTTGTGGAt              <  1:19692452/35‑1 (MQ=255)
                      attgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATc             <  1:283343/35‑1 (MQ=255)
                      attgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATc             <  1:5142531/35‑1 (MQ=255)
                      attgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATc             <  1:14883966/35‑1 (MQ=255)
                      attgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATc             >  1:7496128/1‑35 (MQ=255)
                       ttgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATcc            >  1:3353508/1‑35 (MQ=255)
                       ttgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATcc            >  1:15916412/1‑35 (MQ=255)
                        tgTCCAGAAGGTGGCTGGGGGGTTTTTTGGATcca           >  1:8362869/1‑35 (MQ=255)
                        tgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATcca           <  1:3752761/35‑1 (MQ=255)
                        tgTCCAGAAGGTGGCTGGGGGGTTTTGTGGATcca           <  1:8162752/35‑1 (MQ=255)
                          tCCAGAAGGTGGCTGGGGGGTTTTGTGGATccacc         >  1:17278962/1‑35 (MQ=255)
                          tCCAGAAGGTGGCTGGGGGGTTTTGTGGATccacc         <  1:6670622/35‑1 (MQ=255)
                           ccAGAAGGTGGCTGGGGGGTTTTGTGGATccacca        >  1:18815787/1‑35 (MQ=255)
                           ccAGAAGGTGGCTGGGGGGTTTTGTGGATccacca        >  1:13871952/1‑35 (MQ=255)
                           ccAGAAGGTGGCTGGGGGGTTTTGTGGATccacaa        <  1:16171863/35‑3 (MQ=255)
                            cAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAg       <  1:19957150/35‑1 (MQ=255)
                            cAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAg       <  1:5496371/35‑1 (MQ=255)
                             aGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGc      <  1:15485056/35‑1 (MQ=255)
                             aGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGc      <  1:7722681/35‑1 (MQ=255)
                             aGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGc      >  1:2751387/1‑35 (MQ=255)
                              gAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCg     <  1:223505/35‑1 (MQ=255)
                              gAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCg     >  1:8268116/1‑35 (MQ=255)
                               aaGGTGGCTGGGGGGTTTTGTGGATCCGCCAGCga    <  1:4088361/35‑1 (MQ=255)
                                aGGTGGCTGGGGGGTTTTGTGGATCCACCAGCgag   <  1:12355174/35‑1 (MQ=255)
                                aGGTGGCTGGGGGGTTTTGTGGATCCACCAGAgag   >  1:15085730/1‑35 (MQ=255)
                                 ggTGGCTGGGGGGTTTTGTGGATCCACCAGCgaga  <  1:11450472/35‑1 (MQ=255)
                                 ggTGGCTGGGGGGTTTTGTGGATCCACCAGCgaga  <  1:17482997/35‑1 (MQ=255)
                                  |                                 
GAAGAACATGGAGTCAATATTGATTGTCCAGAAGGTGGCTGGGGGGTTTTGTGGATCCACCAGCGAGA  >  REL606/3882274‑3882341

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ 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.