New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5816927	17 (0.540)	4 (0.150)	4/212	NT	17.6%	intergenic (+57/+72)	PP_5092/pilT	NLP/P60 protein/twitching motility protein
	?	NC_002947	= 5816954	23 (0.850)					intergenic (+84/+45)	PP_5092/pilT	NLP/P60 protein/twitching motility protein

GCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGCG  >  NC_002947/5816807‑5817102                                                                                                                                                    |                                                                                                                                                     gCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAta                                                                                                                                                    <  2:697583‑M2/150‑3 (MQ=255)     tACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGATGAGTCTGGCCAAGCGTTCAGCTGATCTGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGGGTCGCTCTCTCACGCAGCTCACAtacctg                                                                                                                                                <  2:50047‑M2/150‑7 (MQ=255)                cAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggc                                                                                                                                     <  1:652246‑M2/150‑18 (MQ=255)                        tgctgcCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                             >  1:112005‑M2/1‑125 (MQ=255)                        tgctgcCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                             <  2:112005‑M2/134‑10 (MQ=255)                           tgcCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                             >  2:545594‑M2/1‑122 (MQ=255)                           tgcCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgg                                                                                                                                             <  1:545594‑M2/131‑10 (MQ=255)                               gAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATGGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                               <  1:812891‑M2/125‑8 (MQ=255)                               gAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                               >  2:812891‑M2/1‑118 (MQ=255)                                    agcagcagcTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCttt                                                                                                                 <  2:107297/150‑1 (MQ=255)                                             tGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAgg                                                                                                            <  1:756805/146‑1 (MQ=255)                                             tGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAgg                                                                                                            >  2:756805/1‑146 (MQ=255)                                              gAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGtacta                                                                                                       >  2:774382/1‑150 (MQ=255)                                                 ggaggCAAAGCGCTACGATCATCGACACCATCAGGCACCGGAACCCTCGCGCCCACGCCCGCTCCCACCGGAAGCACGCCGCACTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACaa                                                                                                    <  2:180938/147‑1 (MQ=255)                                                     gCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgg                                                                                                                                       >  1:62948‑M2/1‑96 (MQ=255)                                                     gCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgg                                                                                                                                       <  2:62948‑M2/111‑16 (MQ=255)                                                       cAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCttt                                                                                              >  1:36589/1‑150 (MQ=255)                                                        caGCCTTGAGCTCATCATCTCTATCTGGTACCGTACCCTTCGCGCGCACACCCACTCCCACTGGTACACTCTCGCTCTCCCTCGCAGCTCACATACCTGTGTGATCGGGCGTGTCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTg                                                                                             <  2:343860/149‑1 (MQ=255)                                                        aaGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCCCCCACAGCTAGCGCGTCGCTCTCGCGCGCAGCTCACACACCTGTGGGAGCGGCCGCGCCCGCCAAAGGGCCCTGCCAAGTACTACAAGCCTTTg                                                                                             >  2:536338/1‑150 (MQ=38)                                                              tAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAAc                                                                                       <  2:317048/150‑1 (MQ=255)                                                                           gcTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCa                                                                          <  2:652246/150‑1 (MQ=255)                                                                                            ctttcgCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                               <  2:69375‑M2/62‑8 (MQ=255)                                                                                            ctttcgCGGGCACGCCCGCTCCCACAAGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgt                                                                                                                                               >  1:69375‑M2/3‑57 (MQ=255)                                                                                                         gCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcag                                                                                              >  1:761360‑M2/1‑44 (MQ=255)                                                                                                         gCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcag                                                                                              <  2:761360‑M2/100‑57 (MQ=255)                                                                                                           ccGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGTGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCa                                                                          >  1:489654/1‑118 (MQ=255)                                                                                                           ccGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGTGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCa                                                                          <  2:489654/118‑1 (MQ=255)                                                                                                           ccGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATc                                          >  2:531618/1‑150 (MQ=255)                                                                                                               tCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctcttt                                                            <  2:328630‑M2/128‑91 (MQ=255)                                                                                                               tCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACAtacctgtgggagcgggcgtgcccgcgaaggggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctcttt                                                            >  1:328630‑M2/1‑38 (MQ=255)                                                                                                                       gTAGCGCGTCGCTCTCGCGCGCAGCTAACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCgccgcc                              >  1:157276/1‑150 (MQ=255)                                                                                                                           cgcgTCGCTCTCGCGCGCAGCTCACATACCTGTGGGATCGGGCGCGCTCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGccgccccgc                          <  1:827665/150‑1 (MQ=255)                                                                                                                              gTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCCCCCt                       >  2:191440/1‑150 (MQ=255)                                                                                                                                 gCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTTCa                    >  2:714216/1‑150 (MQ=255)                                                                                                                                     tcGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTGTGTTCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCCGCATCCCCTCCGCCGCCCCCCCCTGCCTCAc                >  1:277459/1‑150 (MQ=255)                                                                                                                                      cgcccgCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACt               <  1:50047/150‑1 (MQ=255)                                                                                                                                       gcgcgcAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTg              >  1:816035/1‑150 (MQ=255)                                                                                                                                              gCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCa                                                     >  2:461779/1‑104 (MQ=255)                                                                                                                                              gCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCa                                                     <  1:461779/104‑1 (MQ=255)                                                                                                                                              gCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACaa       <  1:653968/150‑1 (MQ=255)                                                                                                                                                  acaTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTga   >  1:742100/1‑149 (MQ=255)                                                                                                                                                   caTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCCCTGAAGACAACTgcg  >  1:142956/1‑150 (MQ=255)                                                                                                                                                   caTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTgcg  <  2:318263/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                     GCACTACGTGGTGGCCAAGCGGGTGCTGCCGAAAGAGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGCG  >  NC_002947/5816807‑5817102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.