New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 3006451 =87 (0.850)9 (0.100) 4/44 NT 11.8% coding (461/819 nt) yafZ conserved protein
?REL606 4115747 = 55 (0.580)coding (1806/2181 nt) katG catalase/hydroperoxidase HPI(I)

Only 100 of 169 total aligned reads displayed.

AATGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGACCGGATTGAGGAAAAG  >  REL606/3006417‑3006485
                                  |                                  
caccagcgcagtcatttccggcgcggtcagcgtca                                    >  1:20473329‑M1/35‑35 (MQ=255)
caccagcgcagtcatttccggcgcggtcagcgtca                                    >  1:2265940‑M1/35‑35 (MQ=255)
caccagcgcagtcatttccggcgcggtcagcgtca                                    <  1:8134000‑M1/1‑1 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    <  1:20146627/35‑1 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    <  1:4582656/35‑1 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    >  1:4799038/1‑35 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    >  1:10110245/1‑35 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    >  1:8423022/1‑35 (MQ=255)
aaTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGa                                    <  1:10673483/35‑1 (MQ=255)
 accagcgcagtcatttccggcgcggtcagcgtcAg                                   >  1:78794‑M1/34‑35 (MQ=255)
 accagcgcagtcatttccggcgcggtcagcgtcAg                                   <  1:18933139‑M1/2‑1 (MQ=255)
 accagcgcagtcatttccggcgcggtcagcgtcAg                                   >  1:18971399‑M1/34‑35 (MQ=255)
 accagcgcagtcatttccggcgcggtcagcgtcAg                                   >  1:2915549‑M1/34‑35 (MQ=255)
 aTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAg                                   <  1:15421411/35‑1 (MQ=255)
 aTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAg                                   <  1:6992018/35‑1 (MQ=255)
 aTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAg                                   >  1:5583433/1‑35 (MQ=255)
 aTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAg                                   >  1:13695460/1‑35 (MQ=255)
 aTGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAg                                   >  1:2110491/1‑35 (MQ=255)
  tgtgGTGGAGAAAGTTATTGAAGGGGCTTACGAgg                                  >  1:4761385/1‑35 (MQ=255)
  tgtgGTGGAGAAAGTTATTGAAGGGGCTTACGAgg                                  <  1:8480748/35‑1 (MQ=255)
   gtggtgGAGAAAGTTATTGAAGGGGCTTACGAggt                                 <  1:6327224/35‑1 (MQ=255)
   gtggtgGAGAAAGTTATTGAAGGGGCTTACGAggt                                 >  1:10329511/1‑35 (MQ=255)
   gtggtgGAGAAAGTTATTGAAGGGGCTTACGAggg                                 >  1:8318906/1‑34 (MQ=255)
   cagcgcagtcatttccggcgcggtcagcgtcAggt                                 <  1:15020124‑M1/4‑1 (MQ=255)
   cagcgcagtcatttccggcgcggtcagcgtcAggt                                 <  1:7888284‑M1/4‑1 (MQ=255)
   cagcgcagtcatttccggcgcgggcagcgtcaggg                                 <  1:13207224‑M1/4‑2 (MQ=255)
    tggtggAGAAAGTTATTGAAGGGGCTTACGGgggg                                >  1:17117632/1‑33 (MQ=38)
    tggtggAGAAAGTTATTGAAGGGGCTTACGAggtg                                <  1:7731371/35‑1 (MQ=255)
    tggtggAGAAAGTTATTGAAGGGGCTTACGAgggg                                >  1:4931105/1‑33 (MQ=255)
    agcgcagtcatttccggcgcggtcagcgtcAggtg                                <  1:9598456‑M1/5‑1 (MQ=255)
     ggtggAGAAAGTTATTGAAGGGGCTTACGAggtgg                               <  1:7353651/35‑1 (MQ=255)
       tggAGAAAGTTATTGAAGGGGCTTACGAggggggg                             >  1:14196533/1‑33 (MQ=255)
       tggAGAAAGTTATTGAAGGGGCTTACGAGgtggtg                             <  1:12485193/35‑1 (MQ=255)
        ggAGAAAGTTATTGAAGGGGCTTACGAGGtggtgg                            <  1:13916896/35‑1 (MQ=255)
        ggAGAAAGTTATTGAAGGGGCTTACGAGGtggtgg                            <  1:8926708/35‑1 (MQ=255)
        ggAGAAAGTTATTGAAGGGGCTTACGAGGtggtgg                            <  1:2713236/35‑1 (MQ=255)
        cagtcatttccggcgcggtcagcgtcaggtggttg                            <  1:17535526‑M1/9‑3 (MQ=255)
        cagtcatttccggcgcggtcagcgtcAggtggtgt                            <  1:9018580‑M1/9‑2 (MQ=255)
        cagtcatttccggcgcggtcagcgtcAGGtggtgg                            <  1:7306515‑M1/9‑1 (MQ=255)
        cagtcatttccggcgcggtcagcgtcAGGtggtgg                            <  1:2521851‑M1/9‑1 (MQ=255)
         tctaaaGTTATTGAAGGGGCTTACGAGGTGGTggg                           <  1:18581998/32‑1 (MQ=255)
         gagaAAGTTATTGAAGGGGCTTACGAGGTGGTggg                           <  1:9059169/35‑1 (MQ=255)
         gagaAAGTTATTGAAGGGGCTTACGAGGTGGTggg                           <  1:5155531/35‑1 (MQ=255)
         gagaAAGTTATTGAAGGGGCTTACGAGGTGGGggg                           >  1:17131004/1‑35 (MQ=255)
         gagaAAGTTATTGAAGGGGCTTACGAGGTGGGggg                           >  1:10979141/1‑35 (MQ=255)
          agaAAGTTATTGAAGGGGCTTACGAGGTGGGgggg                          >  1:1474389/1‑35 (MQ=255)
          agaAAGTTATTGAAGGGGCTTACGAGGAGGGgggg                          >  1:14576890/1‑35 (MQ=255)
            aaaGTTATTGAAGGGGCTTACGAGGTGGGgggggg                        >  1:4162291/1‑34 (MQ=255)
            aaaGTTATTGAAGGGGCTTACGAGGTGGGGGGGGt                        >  1:19171659/1‑35 (MQ=255)
             aaGTTATTGAAGGGGCTTACGAGGTGGTggggggt                       >  1:11353693/1‑33 (MQ=255)
             aaGTTATTGAAGGGGCTTACGAGGTGGTggggggt                       >  1:12716284/1‑33 (MQ=255)
             aaGTTATTGAAGGGGCTTACGAGGTGGTGGGGGtt                       <  1:5845881/35‑1 (MQ=255)
             aaGTTATTGAAGGGGCTTACGAGGTGGTGGGGGtt                       <  1:8478777/35‑1 (MQ=255)
             aaGTTATTGAAGGGGCTTACGAGGTGGTGGGGGtt                       >  1:12728785/1‑35 (MQ=255)
              aGTTATTGAAGGGGCTTACGAGGTGGTGGGGGttt                      <  1:2162732/35‑1 (MQ=255)
              aGTTATTGAAGGGGCTTACGAGGTGGGGGGGGgtt                      >  1:18983852/1‑35 (MQ=255)
              aGTTATTGAAGGGGCTTACGAGGTGGGGGGGGgtt                      >  1:16961308/1‑35 (MQ=255)
               gTTATTGAAGGGGCTTACGAGGTGGTGGGGGtttt                     <  1:20056006/35‑1 (MQ=255)
               gTTATTGAAGGGGCTTACGAGGTGGTGGGGGtttt                     <  1:10132769/35‑1 (MQ=255)
                ttATTGAAGGGGCTTACGAGGTGGTGGGGGttttt                    <  1:3048100/35‑1 (MQ=255)
                ttATTGAAGGGGCTTACGAGGTGGTGGGGGgtttt                    >  1:1022777/1‑35 (MQ=255)
                ttATTGAAGGGGCTTACGAGGTGGGGGGGGgtttt                    >  1:3933300/1‑35 (MQ=255)
                 tATTGAAGGGGCTTACGAGGTGGTGGGGGGTTTTg                   >  1:14519738/1‑35 (MQ=255)
                  aTTGAAGGGGCTTACGAGGTGGTGGGGGgttttta                  >  1:6831848/1‑33 (MQ=255)
                  aTTGAAGGGGCTTACGAGGTGGGGGGGGgtttttg                  >  1:4327508/1‑33 (MQ=255)
                  aTTGAAGGGGCTTACGAGGTGGGGGGGGGTTTTgt                  >  1:5346896/1‑34 (MQ=255)
                   ttGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGAc                 <  1:10683441/35‑1 (MQ=255)
                   ttGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGAc                 <  1:14601626/35‑1 (MQ=255)
                   ttGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGAc                 <  1:20293911/35‑1 (MQ=255)
                   ttGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGAc                 <  1:13371474/35‑1 (MQ=255)
                   ttGAAGGGGCTTACGAGGTGGGGGGGGGTTTTGAc                 >  1:16455984/1‑35 (MQ=255)
                    tGAAGGGGCTTACGAGGTGGGGGGGGGTTTTTAcc                >  1:391589/1‑35 (MQ=255)
                    tGAAGGGGCTTACGAGGTGGGGGGGGGTTTTGAcc                >  1:5278429/1‑35 (MQ=255)
                     gAAGGGGCTTACGAGGTGGTGGGGGTTTTTGACCg               <  1:8656133/35‑1 (MQ=255)
                     gAAGGGGCTTACGAGGTGGTGGGGGTTTTTGACCg               <  1:11507504/35‑1 (MQ=255)
                      aaGGGGCTTACGAGGTGGTGGGGGTTTTTGACCgg              <  1:11472497/35‑1 (MQ=255)
                      aaGGGGCTTACGAGGTGGTGGGGGTTTTTGACCgg              >  1:11180938/1‑35 (MQ=255)
                       aGGGGCTTACGAGGTGGTGGGGGTTTTTGACCGGa             <  1:19466436/35‑1 (MQ=255)
                        ggggCTTACGAGGTGGTGGGGGTTTTTGACCGGAt            <  1:16408881/35‑1 (MQ=255)
                         gggCTTACGAGGTGGTGGGGGTTTTTGACCGGAtt           <  1:8683415/35‑1 (MQ=255)
                         gggCTTACGAGGTGGTGGGGGTTTTTGACCGGAtt           <  1:2779189/35‑1 (MQ=255)
                         gggCTTACGAGGTGGTGGGGGTTTTTGACCGGAtt           <  1:3673350/35‑1 (MQ=255)
                          ggCTTACGAGGTGGTGGGGGTTTTTGACCGGATTg          <  1:857933/35‑1 (MQ=255)
                            cTTACGAGGTGGTGGGGGTTTTTGACCGGATTGAg        <  1:9475039/35‑1 (MQ=255)
                            cTTACGAGGTGGTGGGGGTTTTTGACCGGATTGAg        >  1:1771377/1‑35 (MQ=255)
                            cTTACGAGGTGGTGGGGGGTTTTTACCGGATTGAg        >  1:18038924/1‑35 (MQ=37)
                             ttACGAGGTGGTGGGGGTTTTTGACCGGATTGAgg       <  1:1834682/35‑1 (MQ=255)
                              tACGAGGTGGTGGGGGTTTTTGACCGGATTGAGGa      <  1:15085159/35‑1 (MQ=255)
                               aCGAGGTGGTGGGGGTTTTTGACCGGATTGAGGaa     <  1:18312222/35‑1 (MQ=255)
                               aCGAGGTGGTGGGGGTTTTTGACCGGATTGAGGaa     >  1:14003431/1‑35 (MQ=255)
                                cGAGGTGGTGGGGGTTTTTGACCGGATTGAGGaaa    <  1:10471241/35‑1 (MQ=255)
                                 gAGGTGGTGGGGGTTTTTGACCGGATTGAGGaaaa   <  1:3369155/35‑1 (MQ=255)
                                 gAGGTGGTGGGGGTTTTTGACCGGATCGAGGaaaa   <  1:4266494/35‑1 (MQ=255)
                                  aGGTGGTGGGTGTTTTTTACCGGATTGGGGAAAAg  >  1:606792/1‑35 (MQ=25)
                                  AGGTGGTGGGGGTTTTTGACCGGATTGAGGAAAAg  <  1:10350784‑M1/35‑1 (MQ=255)
                                  AGGTGGTGGGGGTTTTTGACCGGATTGAGGAAAAg  >  1:10874635‑M1/1‑35 (MQ=255)
                                  AGGTGGTGGGGGTTTTTGACCGGATTGAGGAAAAg  >  1:13360686‑M1/1‑35 (MQ=255)
                                  AGGTGGTGGGGGTTGTTGACCGGATTGAGGAAAAg  >  1:17330895‑M1/1‑35 (MQ=255)
                                  AGGTGGTGGGGGGTTTTGACCGGATTGAGgaaaat  <  1:12343930‑M1/35‑2 (MQ=255)
                                  AGGTGGGGGGGGTTTTTGACCGGATTGAGGAAAAg  <  1:19477543‑M1/35‑1 (MQ=255)
                                  |                                  
AATGTGGTGGAGAAAGTTATTGAAGGGGCTTACGAGGTGGTGGGGGTTTTTGACCGGATTGAGGAAAAG  >  REL606/3006417‑3006485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ 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.