New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 964816 =137 (0.330)22 (0.060) 10/94 NT 14.7% intergenic (+8/‑29) lpxK/ycaQ lipid A 4'kinase/DUF1006 family protein with C‑terminal wHTH domain
?CP009273 964858 = 141 (0.400)coding (14/1233 nt) ycaQ DUF1006 family protein with C‑terminal wHTH domain

Only 100 of 242 total aligned reads displayed.

GGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAAT  >  CP009273/964752‑964883
                                                                |                                                                   
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:20419960/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:24546805/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:25111510/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:17586840/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:12350053/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:274378/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:4570612/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:5238739/1‑67 (MQ=255)
ggTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCcgcg                                                                   >  1:13997877/1‑67 (MQ=255)
 ggggtttgtttaacaggccttgtgcggcaaggtgaagattacgcgcatcagcaagggagaggtGCGGc                                                                 <  1:10390133‑M1/5‑1 (MQ=255)
 ggggtttgtttaacaggccttgtgcggcaaggtgaagattacgcgcatcagcaagggagaggtGCGGc                                                                 <  1:25481329‑M1/5‑1 (MQ=255)
   ggtttgtttaacaggccttgtgcggcaaggtgaagattacgcgcatcagcaagggagaggtGCGGCa                                                                <  1:1811151‑M1/6‑1 (MQ=255)
       aaCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGt                                                            >  1:2362174/1‑67 (MQ=255)
       aaCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGt                                                            >  1:7056134/1‑67 (MQ=255)
       aaCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGt                                                            >  1:8069622/1‑67 (MQ=255)
       aaCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGt                                                            >  1:24684544/1‑67 (MQ=255)
        aCCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTc                                                          >  1:27796835/1‑68 (MQ=255)
                    gCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGt                                              <  1:15720148/68‑1 (MQ=255)
                      ttACGCAACTACCCTTGCTGGCGTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCa                                            <  1:16047704/68‑1 (MQ=255)
                      ttACGCAACTAACCTTGCTGGTTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCa                                            <  1:23379080/68‑1 (MQ=255)
                      ttACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCa                                            <  1:15372486/68‑1 (MQ=255)
                          gCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGaa                                        >  1:4317027/1‑68 (MQ=255)
                          gCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGaa                                        >  1:7694813/1‑68 (MQ=255)
                           cAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAAt                                       >  1:19359270/1‑68 (MQ=255)
                           cAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAAt                                       >  1:11360285/1‑68 (MQ=255)
                            aaCTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATg                                      <  1:288865/68‑1 (MQ=255)
                                aaCCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTc                                    >  1:5779821/1‑66 (MQ=255)
                                 aCCTAGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 <  1:4956692/68‑1 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:10295173/1‑67 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:34095667/1‑67 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:4143027/1‑67 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:9389553/1‑67 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:15082227/1‑67 (MQ=255)
                                  ccTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCt                                 >  1:12290468/1‑67 (MQ=255)
                                   cTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTg                                >  1:29610147/1‑67 (MQ=255)
                                    ttGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGcc                              <  1:25326213/68‑1 (MQ=255)
                                    ttGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGcc                              <  1:6124751/68‑1 (MQ=255)
                                       cTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGc                            >  1:28527589/1‑67 (MQ=255)
                                       cTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGc                            >  1:18954908/1‑67 (MQ=255)
                                       cTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGc                            >  1:17772914/1‑67 (MQ=255)
                                        tGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCAc                          <  1:14531789/68‑1 (MQ=255)
                                        tGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGGTCGATTGATGGAGTCATGAATGTCGCTGCCGCa                           <  1:32859064/67‑1 (MQ=255)
                                         ggCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGcggc                         <  1:21333052/68‑4 (MQ=255)
                                         ggCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCa                           >  1:16315615/1‑66 (MQ=255)
                                         ggCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCa                           >  1:2767471/1‑66 (MQ=255)
                                         ggCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCa                           >  1:34729143/1‑66 (MQ=255)
                                           cTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCAcc                         >  1:8365552/1‑66 (MQ=255)
                                            ttCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      <  1:15334481/68‑1 (MQ=255)
                                            ttCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      <  1:10579058/68‑1 (MQ=255)
                                            ttCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      <  1:16767431/68‑1 (MQ=255)
                                            ttCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      <  1:32429947/68‑1 (MQ=255)
                                            ttCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      <  1:8889366/68‑1 (MQ=255)
                                            cgcatcagcaagggtgaggtGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctc                       <  1:14205702‑M1/47‑1 (MQ=255)
                                            cgcatcagcaagggagaggtGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctc                       <  1:3861303‑M1/47‑1 (MQ=255)
                                             tCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATTGAGTCATGAATGTCGCTGCCGCACctct                      <  1:33561619/67‑1 (MQ=255)
                                             tCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACctct                      >  1:7953428/1‑67 (MQ=255)
                                             tCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCtctc                     <  1:13696635/68‑1 (MQ=255)
                                             tCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCtctc                     <  1:19863727/68‑1 (MQ=255)
                                             tCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCtctc                     <  1:29741893/68‑1 (MQ=255)
                                               tGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTccc                   <  1:27847300/68‑1 (MQ=255)
                                               tGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTccc                   <  1:7836283/68‑1 (MQ=255)
                                                ggCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCt                  >  1:28046069/1‑68 (MQ=255)
                                                  cAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCtt                 >  1:16899808/1‑67 (MQ=255)
                                                  cAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCtt                 >  1:3367074/1‑67 (MQ=255)
                                                  cAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCtt                 <  1:14758783/67‑1 (MQ=255)
                                                  cAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCtt                 <  1:13413563/67‑1 (MQ=255)
                                                   gcaagggagaggtGCGGCAGCGTTGGATTGATGGTGTGATGCATGTCGCTGCCGCACCTCTCCCTTGc               <  1:1162913‑M1/55‑1 (MQ=255)
                                                   aaCTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGc               <  1:26134036/68‑1 (MQ=255)
                                                   aaCTAGGTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGc               <  1:33530713/68‑1 (MQ=255)
                                                     aagggagaggtGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTg             <  1:5446521‑M1/57‑1 (MQ=255)
                                                       aGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCCCCTCTCCCTTGCTGAt           >  1:28326678/1‑68 (MQ=255)
                                                       aGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGAt           >  1:31846428/1‑68 (MQ=255)
                                                        ggagaggtGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGAt           <  1:3012011‑M1/59‑1 (MQ=255)
                                                          tACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcg        <  1:12903199/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:30478865/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:31644376/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:32731338/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:31379685/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:19944472/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:2394270/68‑1 (MQ=255)
                                                           aCGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATgcgc       <  1:17379130/68‑1 (MQ=255)
                                                            cgccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg      >  1:21687260/1‑68 (MQ=255)
                                                            cgccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg      >  1:22264542/1‑68 (MQ=255)
                                                            cgccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGcgcg      >  1:26813180/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:2075479/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:22695882/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:24366571/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:18060647/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:31147073/1‑68 (MQ=255)
                                                             gccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGt     >  1:33998985/1‑68 (MQ=255)
                                                              ccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTa    >  1:5746939/1‑68 (MQ=255)
                                                              ccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTa    >  1:29027944/1‑68 (MQ=255)
                                                              ccgcGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTa    >  1:8209362/1‑68 (MQ=255)
                                                               tGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTaa   <  1:22523008‑M1/67‑1 (MQ=255)
                                                               cgcgGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTaa   <  1:24158262/68‑1 (MQ=255)
                                                               cgcgGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTaa   <  1:29146265/68‑1 (MQ=255)
                                                                GCGGCAGCGTTCGATTGTTGGAGTCATGAATGTCGCTTCCGCACCTCTCCCTTGCTGATGCGCGTAAt  >  1:25057269‑M1/1‑68 (MQ=255)
                                                                GCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAAt  >  1:26951981‑M1/1‑68 (MQ=255)
                                                                GCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAAt  >  1:20131551‑M1/1‑68 (MQ=255)
                                                                GCGGCAGCGTTCGATTGATGGAGGCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAAt  >  1:7242014‑M1/1‑68 (MQ=255)
                                                                |                                                                   
GGTGATGAACCAGCGAAACTGCTTACGCAACTAACCTTGCTGGCTTCTGGCAACTAGTTACGCCGCGGCAGCGTTCGATTGATGGAGTCATGAATGTCGCTGCCGCACCTCTCCCTTGCTGATGCGCGTAAT  >  CP009273/964752‑964883

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.