New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	335567 =	28 (0.570)	3 (0.060)	3/250	NT	8.7%	intergenic (‑172/+32)	PP_0277/PP_5437	hypothetical protein/hypothetical protein
	?	NC_002947	335591 =	36 (0.770)					intergenic (‑196/+8)	PP_0277/PP_5437	hypothetical protein/hypothetical protein

CGGGCAGCGCGCGACGTCACTTTTTAATGATTTGGGGGGGCGGATGATACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCGGGTCGCTCTGG  >  NC_002947/335458‑335737                                                                                                                                      |                                                                                                                                                     ccgacaacagcgttacttcggcggcgcgcgtaggatacttccgaagcatccaaaccctgaagcttttgaccccatggttcagaattcccttacacagataacccggcttacccgctcctacacgggggcgggtAAGCCGGGTTATCtgt                                                                                                                                       <  8:177850‑M2/16‑1 (MQ=255)  gggCAGCGCGCGACGTCACTTTTTAATGATTTGGGGGGGCGGATGATACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCtgtg                                                                                                                                      >  7:262209/1‑149 (MQ=255)                     tttttAATGATTTGGGGGGGCGGATGATACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGCGGGCGGGTAAGCCGGGTTATCTTTGTAAGGGAATTCTGAACGAt                                                                                                                   >  2:226662/1‑149 (MQ=255)                           aTGATTTGGGGGGGCGGATGATACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGt                                                                                                              >  5:151851/1‑148 (MQ=255)                                       ttccgaagcatccaaaccctgaagcttttgaccccatggttcagaattcccttacacagataacccggcttacccgctcctacacgggggcgggtAAGCCGGGTTATCtgtg                                                                                                                                      >  1:124019‑M2/96‑112 (MQ=255)                                       ttccgaagcatccaaaccctgaagcttttgaccccatggttcagaattcccttacacagataacccggcttacccgctcctacacgggggcgggtAAGCCGGGTTATCtgtg                                                                                                                                      <  2:124019‑M2/17‑1 (MQ=255)                                           gatgatACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑Gttt                                                                                           >  6:162658/1‑149 (MQ=255)                                                 acacCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGc                                                                                     >  5:15341/1‑149 (MQ=255)                                                 acacCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGc                                                                                     >  1:13078/1‑149 (MQ=255)                                                     cGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCg                                                                                 <  5:162658/149‑1 (MQ=255)                                                          cGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGATTCGGAAg                                                                             >  1:270109/1‑148 (MQ=255)                                                               ctGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTTAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCt                                                                       <  1:205475/148‑1 (MQ=255)                                                                     cATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACGATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTAcgcgc                                                                 >  2:114700/1‑149 (MQ=255)                                                                     cATTAGCCTTGTGTTGGCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTTTCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATACTTCCGAAGCATccaaaccc                                                                  <  2:298414/148‑7 (MQ=38)                                                                          gCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGcgccgc                                                            >  2:218072/1‑149 (MQ=255)                                                                           ccTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCgccgcc                                                           <  2:13078/149‑1 (MQ=255)                                                                             ttGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGccgccg                                                          >  1:96905/1‑148 (MQ=255)                                                                             ttGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGccgccg                                                          >  5:274140/1‑148 (MQ=255)                                                                               gtgtTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGaa                                                        <  6:274140/148‑1 (MQ=255)                                                                                tgttgtCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAg                                                       >  2:39689/1‑148 (MQ=255)                                                                                tgttgtCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCATACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAACAAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGaa                                                        <  1:226662/148‑1 (MQ=255)                                                                                     tCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGGTGTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACg                                                  <  1:218072/149‑1 (MQ=255)                                                                                     tCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACg                                                  <  5:27591/148‑1 (MQ=255)                                                                                     tCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGc                                                 >  8:166620/1‑149 (MQ=255)                                                                                             ggCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCg                                         >  8:191054/1‑149 (MQ=255)                                                                                             cacagataacccggcttACCCGCCCCCGTGTAGGAGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGaa                                                                              >  1:124019‑M1/18‑112 (MQ=255)                                                                                             cacagataacccggcttACCCGCCCCCGTGTAGGAGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGaa                                                                              <  2:124019‑M1/95‑1 (MQ=255)                                                                                              gCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCgg                                        >  7:26369/1‑149 (MQ=255)                                                                                              acagataacccggcttACCCGCCCCCGTGTAGGAGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCgg                                        <  8:177850‑M1/133‑1 (MQ=255)                                                                                               ccTCTTCGCGTGTGACCCCGCTCCTACACGGGGGCGGTTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCTTGGGGTCAA‑AAGATTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCggg                                       <  8:293585/149‑1 (MQ=255)                                                                                                 tctTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGa                                     >  7:72824/1‑149 (MQ=255)                                                                                                 tctTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGGCgggg                                      >  2:98935/1‑148 (MQ=255)                                                                                                     cgcgGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTg                                 >  3:187820/1‑149 (MQ=255)                                                                                                           tGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCgg                                        <  2:290172/136‑1 (MQ=255)                                                                                                           tGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCgg                                        >  1:290172/1‑136 (MQ=255)                                                                                                             aaCCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACg                          <  4:187820/148‑1 (MQ=255)                                                                                                                CCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATa                      <  4:254637‑M1/149‑1 (MQ=255)                                                                                                                      cTACACGGGGGCGGGTAACCCGGGTTATCTGTGTAAGTGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGaa                                                        <  7:37328/109‑1 (MQ=255)                                                                                                                       tACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGtttt               >  3:99091/1‑149 (MQ=255)                                                                                                                       tACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGtttt               >  7:96009/1‑149 (MQ=255)                                                                                                                         cacGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCg             >  2:90452/1‑149 (MQ=255)                                                                                                                         cacGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCGTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCg             <  6:151851/149‑1 (MQ=255)                                                                                                                          acGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCgg            <  2:96905/149‑1 (MQ=255)                                                                                                                           taggagcgggtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTttcag            <  7:177850‑M2/137‑3 (MQ=255)                                                                                                                              gggCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCGGGTCg        >  5:139499/1‑149 (MQ=255)                                                                                                                                gcgggtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAg                                                       >  6:249356‑M2/7‑100 (MQ=255)                                                                                                                                gcgggtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAg                                                       <  5:249356‑M2/94‑1 (MQ=255)                                                                                                                                  gggtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCggg                                       >  8:127444‑M2/5‑114 (MQ=255)                                                                                                                                  gggtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCggg                                       <  7:127444‑M2/110‑1 (MQ=255)                                                                                                                                    gtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCGGGTCGCTCTgg  >  5:287224‑M2/3‑149 (MQ=255)                                                                                                                                    gtAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCGGGTCGCTCTgg  <  8:96009‑M2/147‑1 (MQ=255)                                                                                                                                      |                                                                                                                                                     CGGGCAGCGCGCGACGTCACTTTTTAATGATTTGGGGGGGCGGATGATACACCGTTGCGGGGGTGGAGCATTAGCCTTGTGTTGTCTGGTATGGCCTCTTCGCGGGTGAACCCGCTCCTACACGGGGGCGGGTAAGCCGGGTTATCTGTGTAAGGGAATTCTGAACCATGGGGTCAA‑AAGCTTCAGG‑GTTTGGATGCTTCGGAAGTATCCTACGCGCGCCGCCGAAGTAACGCTGTTGTCGGGGAAGTGGCTCACGGATACCGTTTTCGGGTCGCTCTGG  >  NC_002947/335458‑335737

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.