New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 413197 =80 (0.780)16 (0.210) 3/36 NT 19.4% coding (93/492 nt) yajQ nucleotide‑binding protein
?REL606 3219746 = 73 (0.950)coding (344/477 nt) agaB N‑acetylgalactosamine‑specific enzyme IIB component of PTS

Only 100 of 185 total aligned reads displayed.

ATAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCTCATTTGAGCTGAACG  >  REL606/413163‑413231
                                  |                                  
aTAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGAc                                    >  1:10464767/1‑35 (MQ=255)
aTAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGAc                                    <  1:1614686/35‑1 (MQ=255)
aTAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGAc                                    <  1:14225203/35‑1 (MQ=255)
 tAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGACt                                   >  1:10117137/1‑35 (MQ=255)
 tAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGACt                                   <  1:10168104/35‑1 (MQ=255)
 tAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGACt                                   <  1:1364117/35‑1 (MQ=255)
 cgacataaactttactgctgatttgctttttccCt                                   <  1:914101‑M1/2‑1 (MQ=255)
 cgacataaactttactgctgatttgctttttccCt                                   <  1:10888011‑M1/2‑1 (MQ=255)
 cgacataaactttactgctgatttgctttttccCt                                   >  1:16182304‑M1/34‑35 (MQ=255)
 cgacataaactttactgctgatttgctttttccCt                                   >  1:11156731‑M1/34‑35 (MQ=255)
 cgacataaactttactgctgatttgctttttccCt                                   <  1:3592286‑M1/2‑1 (MQ=255)
  gacataaactttactgctgatttgctttttccCtt                                  <  1:9767783‑M1/3‑1 (MQ=255)
  gacataaactttactgctgatttgctttttccCtt                                  <  1:8389287‑M1/3‑1 (MQ=255)
  aaCGCGAGTCGCGAAGTGGAGTCCCGTTTTGACtt                                  >  1:16849499/1‑35 (MQ=255)
  aaCGCGAGTCGCGAAGTGGAGTCCCGTTTTGACtt                                  >  1:20437555/1‑35 (MQ=255)
   acataaactttactgctgatttgctttttccCTTc                                 <  1:17314860‑M1/4‑1 (MQ=255)
   acataaactttactgctgatttgctttttccCTTc                                 <  1:3873023‑M1/4‑1 (MQ=255)
   aCGCGAGTCGCGAAGTGGAGTCCCGTTTTGACTTc                                 >  1:18245309/1‑35 (MQ=255)
    cgcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTcc                                <  1:15251922/35‑1 (MQ=255)
    cgcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTcc                                >  1:12654826/1‑35 (MQ=255)
    cataaactttactgctgatttgctttttccCTTcc                                <  1:13827298‑M1/5‑1 (MQ=255)
     gcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCg                               <  1:2889061/35‑1 (MQ=255)
     gcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCg                               <  1:17665019/35‑1 (MQ=255)
     gcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCg                               <  1:1141579/35‑1 (MQ=255)
     gcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCg                               <  1:10798143/35‑1 (MQ=255)
     gcgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCg                               <  1:15810570/35‑1 (MQ=255)
     ataaactttactgctgatttgctttttccCTTCCg                               <  1:4743684‑M1/6‑1 (MQ=255)
     ataaactttactgctgatttgctttttccCTTCCg                               <  1:5916252‑M1/6‑1 (MQ=255)
     ataaactttactgctgatttgctttttccCTTCCg                               >  1:7285139‑M1/30‑35 (MQ=255)
     ataaactttactgctgatttgctttttccCTTCCg                               >  1:8783138‑M1/30‑35 (MQ=255)
     ataaactttactgctgatttgctttttccCTTCCg                               >  1:11761956‑M1/30‑35 (MQ=255)
      cgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGt                              <  1:16731480/35‑1 (MQ=255)
      cgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGt                              >  1:7418788/1‑35 (MQ=255)
      cgAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGt                              >  1:10018129/1‑35 (MQ=255)
       gAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGTa                             >  1:2601215/1‑35 (MQ=255)
        aGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGTaa                            >  1:10020769/1‑35 (MQ=255)
        aGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGTaa                            >  1:12933536/1‑35 (MQ=255)
          tCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACg                          >  1:12505991/1‑35 (MQ=255)
          tCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACg                          >  1:19247436/1‑35 (MQ=255)
          tCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACg                          >  1:4902400/1‑35 (MQ=255)
          tCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACg                          >  1:6996221/1‑35 (MQ=255)
           cgcgAAGTGGAGTCCCGTTTTGCCTTCCGTAACGt                         <  1:13948841/35‑1 (MQ=255)
           cgcgAAGTGGAGTCCCGTTTTGACTTCCGTAACGt                         >  1:10517835/1‑35 (MQ=255)
            gcgAAGTGGAGACCCGTTTTGACTTCCGTAACGtt                        >  1:2550309/1‑35 (MQ=255)
             cgAAGTGGAGTCCCGTTTTGACTTCCGTAACGTTg                       >  1:5323733/1‑35 (MQ=255)
             cgAAGTGGAGTCCCGTTTTGACTTCCGTAACGTTg                       >  1:7447607/1‑35 (MQ=255)
             cgAAGTGGAGTCCCGTTTTGACTTACGTAACGTTg                       <  1:18413177/35‑1 (MQ=255)
              gAAGTGGAGTCCCGTTTTGACTTCCGTAACGTTGa                      >  1:17777672/1‑35 (MQ=255)
               aaGTGGAGTCCCGTTTTGACTTCCGTAACGTTGaa                     >  1:9215561/1‑35 (MQ=255)
               aaGTGGAGTCCCGTTTTGACTTCCGTAACGTTGaa                     >  1:11567670/1‑35 (MQ=255)
               aaGGGGAGTCCCGTTTTGCCTTCCGTAACGTTGaa                     <  1:7468985/35‑1 (MQ=25)
                aGTGGAGTCCCGTTTTGACTTCCGTAACGTTGAAg                    >  1:12037649/1‑35 (MQ=255)
                aGTGGAGTCCCGTTTTGACTTCCGTAACGTTGAAg                    >  1:6348171/1‑35 (MQ=255)
                 gTGGAGTCCCGTTTTTACTTCCGTAACGTTGAAGc                   >  1:10983816/1‑35 (MQ=255)
                 gTGGAGTCCCGTTTTGACTTCCGTAACGTTGAAGc                   >  1:19271256/1‑35 (MQ=255)
                   ggAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCt                 >  1:20015160/1‑35 (MQ=255)
                   ggAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCt                 >  1:14900697/1‑35 (MQ=255)
                    gAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCTc                >  1:6523643/1‑35 (MQ=255)
                    gAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCTc                >  1:632832/1‑35 (MQ=255)
                     aGTCCCGTTTTGACTTCCGTAACGTTGAAGCCTCa               >  1:19899089/1‑35 (MQ=255)
                      gTCCCGTTTTGACTTCCGTAACGTTGAAGCCTCAt              >  1:12520046/1‑35 (MQ=255)
                        ctttttttccCTTCCGTAACGTTGAAGCCTCAttt            >  1:3005434‑M1/11‑35 (MQ=255)
                        cccGTTTTGACTTCCGTAACGTTGAAGCCTCAttt            >  1:13032553/1‑35 (MQ=255)
                        cccGTTTTGACTTCCGTAACGTTGAAGCCTCAttt            >  1:4973918/1‑35 (MQ=255)
                         ctgttttccCTTCCGTAACGTTGAAGCCTCATTTg           >  1:2117581‑M1/10‑35 (MQ=255)
                         ccGTTTTGACTTCCGTAACGTTGAAGCCTCATTTg           >  1:7847176/1‑35 (MQ=255)
                          tttttcccCTTCCGTAACGTTGAAGCCTCATTTGa          >  1:18841827‑M1/9‑35 (MQ=255)
                          ctttttccCTTCCGTAACGTTGAAGCCTCATTTGa          >  1:1150538‑M1/9‑35 (MQ=255)
                          cGTTTTGACTTCCGTAACGTTGAAGCCTCATTTGa          >  1:19680847/1‑35 (MQ=255)
                           ttttgccCTTCCGTAACGTTGAAGCCTCATTTGAg         >  1:15205848‑M1/8‑35 (MQ=255)
                           gtttcccCTTCCGTAACGTTGAAGCCTCATTTGAg         >  1:20187243‑M1/8‑35 (MQ=255)
                           gTTTTGACTTCCGTAACGTTGAAGCCTCATTTGAg         >  1:8617873/1‑35 (MQ=255)
                           gTTTTGACTTCCGTAACGTTGAAGCCTCATTTGAg         >  1:14428119/1‑35 (MQ=255)
                           gTTTTGACTTCCGTAACGTTGAAGCCTCATTTGAg         >  1:13459029/1‑35 (MQ=255)
                            ttttccCTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:10720094‑M1/7‑35 (MQ=255)
                            ttttccCTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:15468086‑M1/7‑35 (MQ=255)
                            ttttTACTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:2055016/1‑35 (MQ=255)
                            ttttGACTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:12725543/1‑35 (MQ=255)
                            ttttGACTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:5390576/1‑35 (MQ=255)
                            tttcccCTTCCGTAACGTTGAAGCCTCATTTGAGc        >  1:14642558‑M1/7‑35 (MQ=255)
                             tttgcCTTCCGTAACGTTGAAGCCTCATTTGAGCt       >  1:11051676‑M1/6‑35 (MQ=255)
                             tttccCTTCCGTAACGTTGAAGCCTCATTTGAGCt       >  1:8046914‑M1/6‑35 (MQ=255)
                             tttGACTTCCGTAACGTTGAAGCCTCATTTGAGCt       >  1:3157113/1‑35 (MQ=255)
                             ttgccCTTCCGTAACGTTGAAGCCTCATTTGAGCt       >  1:15950669‑M1/6‑35 (MQ=255)
                              ttccCTTCCGTAACGTTGAAGCCTCATTTGAGCTg      >  1:2203118‑M1/5‑35 (MQ=255)
                              ttGACTTCCGTAACGTTGAAGCCTCATTTGAGCTg      >  1:5240632/1‑35 (MQ=255)
                              ttGACTTCCGTAACGTTGAAGCCTCATTTGAGCTg      >  1:4351843/1‑35 (MQ=255)
                              ttGACTTCCGTAACGTTGAAGCCTCATTTGAGCTg      >  1:431732/1‑35 (MQ=255)
                               tGACTTCCGTAACGTTGAAGCCTCATTTGAGCTGa     >  1:1717862/1‑35 (MQ=255)
                                gACTTCCGTAACGTTGAAGCCTCATTTGAGCTGaa    >  1:7666821/1‑35 (MQ=255)
                                gACTTCCGTAACGTTGAAGCCTCATTTGAGCTGaa    >  1:12390815/1‑35 (MQ=255)
                                ccCTTCCGTAACGTTGAAGCCTCATTTGAGCTGaa    >  1:20351795‑M1/3‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:1375836‑M1/2‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:5766279‑M1/2‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:1955612‑M1/2‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:8469359‑M1/2‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:8656915‑M1/2‑35 (MQ=255)
                                 cCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:930617‑M1/2‑35 (MQ=255)
                                 aCTTCCGTAACGTTGAAGCCTCATTTGAGCTGAac   >  1:15714553/1‑35 (MQ=255)
                                  CTTCCGTAACGTTGAAGCCTCATTTGAGCTGAacg  >  1:15307153‑M1/1‑35 (MQ=255)
                                  |                                  
ATAACGCGAGTCGCGAAGTGGAGTCCCGTTTTGACTTCCGTAACGTTGAAGCCTCATTTGAGCTGAACG  >  REL606/413163‑413231

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.