New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5816871	27 (0.500)	6 (0.130)	5/224	NT	19.9%	intergenic (+57/+72)	PP_5092/pilT	NLP/P60 protein/twitching motility protein
	?	NC_002947	= 5816898	25 (0.540)					intergenic (+84/+45)	PP_5092/pilT	NLP/P60 protein/twitching motility protein

CTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGC  >  NC_002947/5816754‑5817045                                                                                                                                                  |                                                                                                                                                    cTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCCCGCCCCCAGGTAGCGCGTCGCGCGAGCGGGCCGCGCACCtacc                                                                                                                                                 <  1:311699‑M2/149‑5 (MQ=255)  tACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacct                                                                                                                                                <  1:263859‑M2/149‑6 (MQ=255)    cGTGGTGGCCAAGCGGGTGCTTCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                              >  5:322734‑M2/1‑142 (MQ=255)    cGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                              >  2:263859‑M2/1‑142 (MQ=255)    cGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctg                                                                                                                                               >  2:69580‑M2/1‑142 (MQ=255)     gtggtgGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtg                                                                                                                                             >  6:186240‑M2/1‑141 (MQ=255)     gtggtgGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtg                                                                                                                                             >  3:176644‑M2/1‑141 (MQ=255)      tggtggCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                            >  5:178218‑M2/1‑140 (MQ=255)      tggtggCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                            >  2:48417‑M2/1‑140 (MQ=255)             cAAGCGGGTGCTGCCGAAAGAGCAGCAGCGTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgg                                                                                                                                      <  1:201425‑M2/149‑16 (MQ=255)              aaGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggc                                                                                                                                    >  7:274404‑M2/1‑132 (MQ=255)              aaGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggc                                                                                                                                    >  2:113292‑M2/1‑132 (MQ=255)                gCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGgcgc                                                                                                                                  <  2:323951/149‑1 (MQ=255)                    gTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGccc                                                                                                                              <  2:30304/149‑1 (MQ=255)                     tgctgcCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTACCACACGTAGCGCGTCCCTCGCGCGCGCAGCTCACCAACCTGTGGGAGAGGGCGCGCCcg                                                                                                                             >  6:254568/1‑149 (MQ=255)                       ctgcCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCcgc                                                                                                                            <  2:98801/148‑1 (MQ=255)                           cGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGCTAGCGCGTCGCTCTCGCGCGCAGCTCACATAACTCTGGGAGCGGGCGCGCCCCCGaaac                                                                                                                       >  6:343911/1‑148 (MQ=255)                              aatcccagcagc‑TGAGTCTGGCCATGCGTTAAGCTTACCGGCGCTACCCGGTACGGGCCCCTTCGCGGGCACGCCCGCTCCCACCGGTCGCGGGTCGCTCTCGCGCGCAGCCCACAACCCGGTGGGCGCGGGCGCGCCCGCGAAAGGGc                                                                                                                    <  2:311699/144‑1 (MQ=255)                                  gcagcagc‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                            <  6:327108‑M2/121‑10 (MQ=255)                                  gcagcagc‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                            >  5:327108‑M2/1‑112 (MQ=255)                                       agc‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAgg                                                                                                           <  1:101457/149‑1 (MQ=255)                                                   gCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACaa                                                                                                   <  4:34248/146‑1 (MQ=255)                                                     cAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCATCTCACATACCTGTGTGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCtt                                                                                              <  5:254568/149‑1 (MQ=255)                                                         cgtactccTGATGGGCGCTTCCCGGCACCGGCCCCTTCGCGGGCCCGCCCGCTCCCACTGGTCCCGCGGCGCTCTCGCCCCAAGCCCAAATCCCTGGGGGCGGGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGa                                                                                           <  8:285867/141‑1 (MQ=255)                                                         cGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCTGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGAt                                                                                          <  4:284813/149‑1 (MQ=255)                                                          gTTAAGCTTATCGGGGCTATCCGGTACGGGCCCGTTCGCGGCCACGCCCGCTCCCACAGGTTGCGCTTCGCTCTCGCTAGCAGCTCACATAGCTGTGGTAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATc                                                                                         <  5:295628/149‑1 (MQ=255)                                                                                        ccccTTCCCGGGCACGCCCGCTCCCACCGGTCGCGCGGCGATCTCGCGCGAAGCTCACAAACCTGTGGGAGCGGGCTCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGcc                                                           <  5:186498/149‑1 (MQ=255)                                                                                         cccTTCGCTGGCACGCCCGCTCCCTCAGTTCCCGGTTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGccc                                                          <  8:37663/149‑1 (MQ=38)                                                                                               gcgGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCa                                                    >  4:123576/1‑149 (MQ=255)                                                                                                         ccGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGTAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttgg                                          <  7:223993‑M2/149‑108 (MQ=255)                                                                                                            cTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGCTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGGCAGCATccc                                       <  5:343911/149‑1 (MQ=255)                                                                                                             tCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgcgcccgcgaaagggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccac                                      <  4:296628‑M2/149‑112 (MQ=255)                                                                                                               ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcgcccgcttggccacca                                    <  4:67903‑M2/149‑114 (MQ=255)                                                                                                               ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgcgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccacca                                    <  5:344823‑M2/149‑114 (MQ=255)                                                                                                               ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCa                                              >  4:125738/1‑139 (MQ=255)                                                                                                               ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCa                                              <  3:125738/139‑1 (MQ=255)                                                                                                               ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATcccc                                      <  3:123576/147‑1 (MQ=255)                                                                                                                cacaGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACa                                                                                                    <  5:70481/84‑1 (MQ=255)                                                                                                                cacaGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACa                                                                                                    >  6:70481/1‑84 (MQ=255)                                                                                                                   aGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTccgcc                                >  3:231739/1‑149 (MQ=255)                                                                                                                     gTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccaccacgtagt                              <  3:262325‑M2/149‑120 (MQ=255)                                                                                                                     gTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCcgccgc                              <  2:201425/149‑1 (MQ=255)                                                                                                                          gcgTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCAt                                          <  5:327425/132‑1 (MQ=255)                                                                                                                          gcgTAGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCAt                                          >  6:327425/1‑132 (MQ=255)                                                                                                                              cGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCtt                                                                                              >  1:133718/1‑76 (MQ=255)                                                                                                                              cGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCtt                                                                                              <  2:133718/76‑1 (MQ=255)                                                                                                                                       gcgtAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccaccacgtagtgcttctgccagtaaggct            >  8:223993‑M2/1‑12 (MQ=255)                                                                                                                                                acaTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTg             >  2:154494/1‑139 (MQ=255)                                                                                                                                                acaTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTg             <  1:154494/139‑1 (MQ=255)                                                                                                                                                 gatacgtgtggtcgcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccaccacgtagtgcttctgccagtaaggcttgctcaaggt  >  7:37663‑M2/2‑2 (MQ=255)                                                                                                                                                 caTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTgc  <  4:231739/149‑1 (MQ=255)                                                                                                                                                  aTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCt                                                       >  2:36370/1‑95 (MQ=255)                                                                                                                                                  aTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCt                                                       <  1:36370/95‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                    CTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGC‑TGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGC  >  NC_002947/5816754‑5817045

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.