New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5816842	50 (0.780)	9 (0.150)	8/244	NT	21.2%	intergenic (+28/+101)	PP_5092/pilT	NLP/P60 protein/twitching motility protein
	?	NC_002947	= 5816927	19 (0.310)					intergenic (+113/+16)	PP_5092/pilT	NLP/P60 protein/twitching motility protein

AGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGCGCCAACCGC  >  NC_002947/5816786‑5817054                                                                                                                                              |                                                                                                                                agcagcagcTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCtt                                                                                                                          <  8:386604/149‑1 (MQ=255)         cTGAGTCTGGCCAAGCGTGAAGCTGATCGGCGCTATCCGGGACCGGCCCCTTCGCTGGCACGCCCGCGCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGGGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGta                                                                                                                  <  3:355144/149‑1 (MQ=38)           gAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGtact                                                                                                                <  5:342396/149‑1 (MQ=255)                      aGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTg                                                                                                     <  7:189422/149‑1 (MQ=255)                       gCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGa                                                                                                    <  3:90602/149‑1 (MQ=255)                                   tCGGCTCTATCCTGTACCCGCCCCTTCGCGGGCACGCACGCTCCCTCCGGTTGCTCGTGGCTCTCGCGCGCAGCCCTCATACCTGTCGGAGCGGGCTCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCt                                                                                        <  6:382162/149‑1 (MQ=255)                                        gcTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTc                                                                                   <  8:75090/149‑1 (MQ=255)                                                     ggCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGtac                                                                                                                 <  7:295296/106‑1 (MQ=255)                                                           ttCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCGGTGGGAGCGGGCGCGCCCGCAAAGgggccgggaccggagagcgccgatcagcgtaacgcttggccagactccgctgctgctctttcggc                                                                <  1:234702‑M2/149‑66 (MQ=255)                                                                  gCACGCCGGCTGCCACAGGTAGCGGGTCGCTCTCGCGCGCAGCTCAGATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGt                                                         <  4:321668/149‑1 (MQ=255)                                                                         cGCTCCCACAGGTCGCGCGTCGCTCTCGCGCGCAGCTCACATACGTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATc                                                  <  3:169589/149‑1 (MQ=255)                                                                          gCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAgggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggcc                                                 <  5:382994‑M2/149‑81 (MQ=255)                                                                           cTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATccc                                                <  1:154017/149‑1 (MQ=255)                                                                            tCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAgggcctttgcaggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgctt                                               <  4:203662‑M2/149‑83 (MQ=255)                                                                            tCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAgggcctttgcaggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgctt                                               <  4:28726‑M2/149‑83 (MQ=255)                                                                              ccACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAgggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccacca                                             <  3:93544‑M2/149‑85 (MQ=255)                                                                                  aGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAgggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccaccacgta                                         >  6:382994‑M2/1‑61 (MQ=255)                                                                                    gTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCTCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCcgccgc                                       <  8:366164/149‑1 (MQ=255)                                                                                    gTAGCGCGTCGCTCTCGCGCGCAGCTAACATACCTGTGGGAGCGGGCGTGCCCGCGAAGgggccggtaccggatagcgccgataagcttaacgcttggccagactcagctgctgctatttcggcagcacccgctttgcccccacctagt                                       <  2:396875‑M2/149‑91 (MQ=255)                                                                                              gCTCTCGCGCTCAGCTCACATACCTGTGGGAGCGGGCGTGCCCGCGAAGgggccggtaccggatagcgccgatcagcttaacgcttggccagactcagctgctgctctttcggcagcacccgcttggccaccacgtagtgcttctgcca                             >  1:396875‑M2/1‑49 (MQ=255)                                                                                                tctcGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCAta                                                  >  8:337322/1‑125 (MQ=255)                                                                                                  tcGCGCGCAGCGCACATACCTGTGGGAGCGGGCGCGCCCGCGAACGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGccgccc                                     <  6:325848/137‑1 (MQ=255)                                                                                                       cgcAGCTCACATACCTGTGGGAGCGGGCGTGCCCGCGAAGgggccggtaccggatagcgccgatcagcttaacgcttggccagaatcagctgctgctctttcggcagcacccgcttggccaccacgtagtgcttctgccagtaaggctt                    <  8:326829‑M2/149‑110 (MQ=255)                                                                                                        gcAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCtt                                                                                                       <  7:105419/65‑1 (MQ=255)                                                                                                        gcAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCtt                                                                                                       >  8:105419/1‑65 (MQ=255)                                                                                                             tCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCGCCGCCGCCCCCCCCGGCATCACGGCAGACaa               >  5:161417/1‑148 (MQ=255)                                                                                                               acaTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGcc                                                                    >  7:314369/1‑93 (MQ=255)                                                                                                               acaTACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGcc                                                                    <  8:314369/93‑1 (MQ=255)                                                                                                                         tttcgCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTAAGAATCCCCTAAGCCGCCCCCCCCGGCGTCAATGAAGACAAAGGCGGCAACCga  >  7:342486/5‑148 (MQ=255)                                                                                                                                              |                                                                                                                                AGCAGCAGCTGAGTCTGGCCAAGCGTTAAGCTGATCGGCGCTATCCGGTACCGGCCCCTTCGCGGGCACGCCCGCTCCCACAGGTAGCGCGTCGCTCTCGCGCGCAGCTCACATACCTGTGGGAGCGGGCGCGCCCGCGAAAGGGCCTTTGCAGGTACTACAAGCCTTTGATCAACCCTCGCTCCCTCAGCCTCCGCAACGCCCCCTCCATCGTCAGCATCCCCTCCGCCGCCCCGCCCTGCATCACTGAAGACAACTGCGCCAACCGC  >  NC_002947/5816786‑5817054

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.