New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 1187529 =157 (0.330)9 (0.020) 4/96 NT 5.6% coding (559/642 nt) hflD putative lysogenization regulator
?CP009273 1187561 = 168 (0.410)coding (527/642 nt) hflD putative lysogenization regulator

Only 100 of 273 total aligned reads displayed.

AATGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCGC  >  CP009273/1187463‑1187595
                                                                  |                                                                  
aaTGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTcc                                                                    >  1:12392792/1‑67 (MQ=255)
 aTGAGGAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTccg                                                                   >  1:31222897/1‑67 (MQ=255)
 aTGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTccg                                                                   >  1:7690954/1‑67 (MQ=255)
 aTGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTccg                                                                   >  1:23807179/1‑67 (MQ=255)
  tGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTccgcc                                                                 >  1:23005021/1‑68 (MQ=255)
   tgctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgcc                                                                 <  1:27990449‑M1/4‑1 (MQ=255)
   tgctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgcc                                                                 <  1:13196079‑M1/4‑1 (MQ=255)
   tgctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgcc                                                                 <  1:17913424‑M1/4‑1 (MQ=255)
   tgctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgcc                                                                 <  1:20327570‑M1/4‑1 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:2439327‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:25208851‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:27076954‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:13473270‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:6646513‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:7033769‑M1/63‑68 (MQ=255)
    gctgtactgcaaagcccacaactgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:37813802‑M1/63‑68 (MQ=255)
    gctgtactcccaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgcgccgc                                                               >  1:27871982‑M1/63‑68 (MQ=255)
      tgtactgcaaagcccacaagtgcaggcgaaagttcgcgcaaccctgctggcaggcattcgCGccgccg                                                             <  1:7594325‑M1/8‑1 (MQ=255)
      cAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTccgccgccg                                                             >  1:31397355/1‑68 (MQ=255)
       aaGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGa                                                            <  1:30836877/68‑1 (MQ=255)
           aTTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGAcc                                                          <  1:23344958/66‑1 (MQ=255)
           aTTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGAcc                                                          <  1:35576264/66‑1 (MQ=255)
           aTTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGAcc                                                          <  1:6346806/66‑1 (MQ=255)
            tttGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTgg                                                       <  1:5346331/68‑1 (MQ=255)
             ttGTTTTGCTTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGt                                                      <  1:38320075/68‑1 (MQ=255)
             ttGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGt                                                      <  1:16024478/68‑1 (MQ=255)
             ttGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGt                                                      <  1:28272626/68‑1 (MQ=255)
             ttGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGt                                                      <  1:38039525/68‑1 (MQ=255)
              tGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTg                                                     <  1:22733659/68‑1 (MQ=255)
              tGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTg                                                     <  1:28793627/68‑1 (MQ=255)
              tGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTg                                                     <  1:9620395/68‑1 (MQ=255)
               gTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTggag                                                     >  1:39231982/1‑65 (MQ=255)
               gTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTg                                                     >  1:34468895/1‑67 (MQ=255)
                ttttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   >  1:11299077/1‑68 (MQ=255)
                ttttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   >  1:11468276/1‑68 (MQ=255)
                ttttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   >  1:31883274/1‑68 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   <  1:36177005/67‑1 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   <  1:34353021/67‑1 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGcc                                                   <  1:33748393/67‑1 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCa                                                  >  1:9232894/1‑68 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCa                                                  >  1:25729680/1‑68 (MQ=255)
                 tttGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCa                                                  >  1:2992538/1‑68 (MQ=255)
                   tGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCaga                                                <  1:10077185/68‑1 (MQ=255)
                   tGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCaga                                                <  1:36509698/68‑1 (MQ=255)
                   tGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCaga                                                <  1:18227755/68‑1 (MQ=255)
                   tGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCaga                                                <  1:30217775/68‑1 (MQ=255)
                   tGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCaga                                                <  1:19516424/68‑1 (MQ=255)
                     ccTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCagag                                               >  1:36766514/1‑67 (MQ=255)
                     ccTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGc                                              >  1:18477623/1‑68 (MQ=255)
                      cTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGc                                              <  1:15169196/67‑1 (MQ=255)
                          gTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCAcggc                                         >  1:17215689/1‑68 (MQ=255)
                           gcaggcgaaagttcgcgcaaccctgctggcaggcattcgCGCCGCCGACCTGGTGCCAGAGCAcggc                                         >  1:34289023‑M1/40‑67 (MQ=255)
                            ggTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCAcggcg                                        >  1:5153156/1‑67 (MQ=255)
                            ggTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCAcggcg                                        >  1:19596601/1‑67 (MQ=255)
                              tCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACggcggc                                      <  1:25672248/67‑1 (MQ=255)
                               cAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGgcgc                                    >  1:5645954/1‑68 (MQ=255)
                                aGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGcgcg                                   >  1:4335813/1‑68 (MQ=255)
                                 ggCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCCCGGCGGCGCGa                                  >  1:18687155/1‑68 (MQ=255)
                                 ggCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGa                                  >  1:32185124/1‑68 (MQ=255)
                                 ggCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGa                                  >  1:26136740/1‑68 (MQ=255)
                                 ggCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGa                                  >  1:34925997/1‑68 (MQ=255)
                                 ggCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGa                                  >  1:23433051/1‑68 (MQ=255)
                                        aCGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGGCAGAGCACGGCGGCGCGAAtgcct                            >  1:21328004/1‑67 (MQ=255)
                                        aCGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAAtgcct                            >  1:24768620/1‑67 (MQ=255)
                                          gagaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAAtgcctgcc                         <  1:33179938/68‑1 (MQ=255)
                                          gagaAAACATCAGTTGCAGACGGCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAAtgcctgcc                         <  1:39574442/68‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:39090277/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:12918889/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:34412990/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:7459484/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:1997970/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:22034168/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:18889908/67‑1 (MQ=255)
                                            gaAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCca                        <  1:16620609/67‑1 (MQ=255)
                                              aaaCATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCcagca                     >  1:35882358/1‑68 (MQ=255)
                                                  aTCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGt                 >  1:29590967/1‑68 (MQ=255)
                                                       ttGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTgcgc            >  1:10445452/1‑68 (MQ=255)
                                                        tGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGcgcg           >  1:1546212/1‑68 (MQ=255)
                                                        tGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGcgcg           >  1:28182681/1‑68 (MQ=255)
                                                        tGCAGACGTCCGCCGCCGAACTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGcgcg           >  1:6448241/1‑68 (MQ=255)
                                                          ggcattcgCGCCGCCGCCCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCCGCAGGGTTgcgcgg          <  1:38557673‑M1/59‑2 (MQ=255)
                                                          ggcattcgCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGa          <  1:37172149‑M1/59‑1 (MQ=255)
                                                            gACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGGCAGCAGGGTTGCGCGAACt       >  1:24093447/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:3604319/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:20587005/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:7927036/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:1211353/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:5916618/1‑68 (MQ=255)
                                                             aCGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:32479384/1‑68 (MQ=255)
                                                              ttcgCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      <  1:11790708‑M1/63‑1 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAAc        <  1:26922538/65‑1 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAAc        <  1:15891178/65‑1 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAAc        <  1:30510334/65‑1 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:26802285/1‑67 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACtt      >  1:20120803/1‑67 (MQ=255)
                                                              cGTCCGCCGCCGACCTGGAGACAGAGCCCGGCGGCGCGAAAGCCTGGCAGCAGGGTTCCGCGAACtt      >  1:14200423/1‑67 (MQ=255)
                                                                 ccgccgccgACCTGGTGCCTTAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCg   <  1:14641987/67‑1 (MQ=255)
                                                                 ccgccgccgACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCg   <  1:38684555/67‑1 (MQ=255)
                                                                 ccgccgccgACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCGc  <  1:9382547/68‑1 (MQ=255)
                                                                  CGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCg   <  1:8511343‑M1/66‑1 (MQ=255)
                                                                  |                                                                  
AATGAGCAAGAATTTGTTTTGCCTGAGTGGTCAGGCGATTACGAGAAAACATCAGTTGCAGACGTCCGCCGCCGACCTGGTGCCAGAGCACGGCGGCGCGAATGCCTGCCAGCAGGGTTGCGCGAACTTTCGC  >  CP009273/1187463‑1187595

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.