New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5802257	40 (0.920)	4 (0.100)	4/240	NT	8.7%	coding (633/1239 nt)	pilQ	type IV pili biogenesis protein
	?	NC_002947	= 5802273	46 (1.120)					coding (617/1239 nt)	pilQ	type IV pili biogenesis protein

GCTGCGAAATGATTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCGGCCAGGCGGT  >  NC_002947/5802112‑5802405                                                                                                                                                   |                                                                                                                                                     gCTGCGAAATGATTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCCGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAgct                                                                                                                                                  >  2:327884/1‑148 (MQ=255) gCTGCGAAATGATTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCtgta                                                                                                                                                  >  1:451757‑M1/1‑146 (MQ=255) gCTGCGAAATGATTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGtt                                                                                                                                                  >  1:393296/1‑150 (MQ=255)            aTTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGGTATTGGTCGGGTTGTTCGTCACCGCGCAACAAAC‑TGGTTTCGATACTGCTGCCGGGAAGCTCCAGACTGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTAc                                                                                                                                       >  1:861924/1‑150 (MQ=255)                 gCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAgcgg                                                                                                                                  >  2:393296‑M2/1‑146 (MQ=255)                          gCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCa                                                                                                                         <  1:974526/150‑1 (MQ=255)                                     tGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCa                                                                                                              >  2:242070/1‑150 (MQ=255)                                      ggCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAg                                                                                                             <  1:693282/150‑1 (MQ=255)                                         aCTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCt                                                                                                          >  1:1103253/1‑150 (MQ=255)                                           tGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCttt                                                                                                        >  1:1092045/1‑150 (MQ=255)                                                tCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCa                                                                                                   >  1:226169/1‑150 (MQ=255)                                                tCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTCCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCa                                                                                                   <  1:687276/150‑1 (MQ=255)                                                   aGGTCCAGCAGCACGTCCCCGCG‑ACCGGCCTCCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACCGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATaa                                                                                                <  1:550300/150‑1 (MQ=255)                                                     gTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGACTTATGTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATc                                                                                              <  2:942563/150‑1 (MQ=255)                                                           cagcaCGCCACCGCGCAACAAAC‑CCGGGCCGAGACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACCGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGtt                                                                                        <  2:534148/150‑1 (MQ=255)                                                            agcaCGTCACCGCGCAACAAGC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTg                                                                                       <  2:1103253/150‑1 (MQ=255)                                                              caCGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCCGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGc                                                                                     <  2:855576/150‑1 (MQ=255)                                                               aCGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGcc                                                                                    <  1:1120033/150‑1 (MQ=255)                                                                   cACCGCGCAACAAAC‑CCCGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAACTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTcga                                                                                <  1:530090/150‑1 (MQ=255)                                                                    aCCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCtt                                                                                                         >  2:843864/1‑124 (MQ=255)                                                                    aCCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCtt                                                                                                         <  1:843864/124‑1 (MQ=255)                                                                    aCCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTcgac                                                                               <  2:226169/150‑1 (MQ=255)                                                                     ccGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTcgacg                                                                              >  1:145166/1‑150 (MQ=255)                                                                        cgcAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGCCCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATa                                                                           <  2:145166/150‑1 (MQ=255)                                                                            acaaAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATAcgcg                                                                       >  1:100505/1‑150 (MQ=255)                                                                            acaaAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATAcgcg                                                                       >  2:352469/1‑150 (MQ=255)                                                                             caaAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCtgtacggcgagaaactgcggccc                                                                                                                               <  1:178644‑M1/93‑24 (MQ=255)                                                                             caaAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCtgtacggcgagaaactgcggccc                                                                                                                               >  2:178644‑M1/1‑70 (MQ=255)                                                                                   ccAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGa                                                                 >  2:854212/1‑150 (MQ=255)                                                                                   ccAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGa                                                                 >  1:250239/1‑150 (MQ=255)                                                                                   ccAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTAAAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGa                                                                 >  1:859930/1‑150 (MQ=255)                                                                                     aGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACCGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGTCTCGACGATACGCGCCTCGATc                                                               >  1:503340/1‑150 (MQ=255)                                                                                       gCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGc                                                             >  2:766300/1‑150 (MQ=255)                                                                                               tgctgcCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGAGCCTCGATCGCTACCTGgc                                                     >  1:288801/1‑150 (MQ=255)                                                                                                    ccGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCAcc                                                <  2:863691/150‑1 (MQ=255)                                                                                                    ccGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACACCAGACCATCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCAcc                                                <  2:1062061/150‑1 (MQ=255)                                                                                                       gCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGc                                             >  2:350753/1‑150 (MQ=255)                                                                                                                         tCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGCCGATACGCGCCTCGATCGCTCCCTGGCGCACCGGCACATCCAACTGTGccccc                           >  1:127462/1‑150 (MQ=255)                                                                                                                           gacgaACAGCTCCTTGCCGGGCCGCtgtacggcgagaaactgcg                                                                                                                                   <  1:821254‑M1/44‑20 (MQ=255)                                                                                                                           gacgaACAGCTCCTTGCCGGGCCGCtgtacggcgagaaactgcg                                                                                                                                   >  2:821254‑M1/1‑25 (MQ=255)                                                                                                                              gaACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGcaca                                          <  2:979660/130‑1 (MQ=255)                                                                                                                              gaACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGcaca                                          >  1:979660/1‑130 (MQ=255)                                                                                                                                    cTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCAGCTGGTGGCGCag                <  1:327884/150‑2 (MQ=255)                                                                                                                                    cTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGACTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCAt                <  1:79692/150‑1 (MQ=255)                                                                                                                                       cTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCAtctc             >  2:286789/1‑150 (MQ=255)                                                                                                                                       cTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCA‑CCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCg            >  1:1123582/1‑150 (MQ=255)                                                                                                                                        ttGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCg            <  2:993251/150‑1 (MQ=255)                                                                                                                                          gCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCGGc          <  1:854212/150‑1 (MQ=255)                                                                                                                                             gggCCGCAGTTTCTCGCCGTACAgcggcccggcaaggagctgttcgtcgacctcggtctggagcgtgccggcagcagtatcggcctgggtttg                                                                <  1:178644‑M2/93‑71 (MQ=255)                                                                                                                                             gggCCGCAGTTTCTCGCCGTACAgcggcccggcaaggagctgttcgtcgacctcggtctggagcgtgccggcagcagtatcggcctgggtttg                                                                >  2:178644‑M2/1‑23 (MQ=255)                                                                                                                                               gCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCGGCCAGGc     <  1:242070/150‑1 (MQ=255)                                                                                                                                               gCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGAGCTCCCGCAAGCCAAAGTGATGTTTGACGTTGGCCGCGTCGATACGCGCCTCGATCGCTACCTGCCGCCCCGGCACCCCCAACTCCGCCACCAGCTGCCGCATCTCGGCCAGGc     <  2:1092045/150‑1 (MQ=255)                                                                                                                                                ccGCtgtacggcgagaaactgcggcccggcaaggagctgttcgtcgacctcggtctggagcgtgccggcagcagtatcggcctgggtttgttgcgcggtgacgtgctgctggacctggagctcagtgccatggaaaaaagcggcaacggc    >  2:393296‑M1/1‑4 (MQ=255)                                                                                                                                                 cGCAGTTTCTCGCCGTACAgcggcccggcaaggagctgttcgtc                                                                                                             >  2:821254‑M2/1‑19 (MQ=255)                                                                                                                                                 cGCAGTTTCTCGCCGTACAgcggcccggcaaggagctgttcgtc                                                                                                             <  1:821254‑M2/44‑26 (MQ=255)                                                                                                                                                  gCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCGGCCAGGCGGt  >  2:766112/1‑150 (MQ=255)                                                                                                                                                   |                                                                                                                                                     GCTGCGAAATGATTTCGCCGTTGCCGCTTTTTTCCATGGCACTGAGCTCCAGGTCCAGCAGCACGTCACCGCGCAACAAAC‑CCAGGCCGATACTGCTGCCGGCACGCTCCAGACCGAGGTCGACGAACAGCTCCTTGCCGGGCCGCAGTTTCTCGCCGTACAGCGGCCCACCCCAGCGTACCCCCAGGCTTTTCTCATAATCGACGTTGGCCTCGACGATACGCGCCTCGATCGCTACCTGGCGCACCGGCACATCCAACTGCGCCACCAGCTGGCGCATCTCGGCCAGGCGGT  >  NC_002947/5802112‑5802405

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.