New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3674020	45 (0.860)	3 (0.060)	3/234	NT	5.8%	intergenic (+134/+6)	PP_3237/PP_3238	universal stress protein family protein/transcriptional regulator PyrR
	?	NC_002947	= 3674044	54 (1.080)					coding (555/573 nt)	PP_3238	transcriptional regulator PyrR

GCTGACGACTGCAAGAACGACGAACGGGTGGCGACGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTCGACGAG  >  NC_002947/3673896‑3674187                                                                                                                                                     |                                                                                                                                                gCTGACGACTGCAAGAACGACGAACGGGTGGCGACGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTc                                                                                                                                                <  1:833686‑M2/150‑2 (MQ=255)             aaGAACGACGAACGGGTGGCGACGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGca                                                                                                                                    <  1:1129715/150‑1 (MQ=255)             aaGAACGACGAACGGGTGGCGACGGGTAGACAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGca                                                                                                                                    >  2:1155391/1‑150 (MQ=255)               gAACGACGAACGGGTGGCGACGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGcacc                                                                                                                                  >  2:1166749/1‑150 (MQ=255)                  cgacgaACGGGTGGCGACGGGTAGTCGGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCaccacc                                                                                                                               >  1:267769/1‑150 (MQ=255)                                  aCGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGcc                                                                                                               >  2:1256869/1‑150 (MQ=255)                                    gggTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCt                                                                                                             <  2:1311760/150‑1 (MQ=255)                                     ggTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCtt                                                                                                            >  2:159790/1‑150 (MQ=255)                                            aGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAggg                                                                                                     <  1:855235/150‑1 (MQ=255)                                             gTGGCTCAGCACCACCCGGTGCAACGTAGCGCCTGGAGGCCTTGATTCTCAATCCTTACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCCCCTCCACGCAGAATTGCCCTTCGTAgggg                                                                                                    <  1:1109019/150‑1 (MQ=255)                                                gCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGc                                                                                                 <  1:334327/150‑1 (MQ=255)                                                 cTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGca                                                                                                >  1:1374847/1‑150 (MQ=255)                                                  tCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGcac                                                                                               >  2:1057538/1‑150 (MQ=255)                                                       accaccCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAggggg                                                                                                   <  2:435795/141‑1 (MQ=255)                                                       accaccCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAggggg                                                                                                   >  1:435795/1‑141 (MQ=255)                                                        ccaccCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCa                                                                                         >  2:974392/1‑150 (MQ=255)                                                           cccGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAggggg                                                                                                   >  1:1042801/1‑137 (MQ=255)                                                           cccGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAggggg                                                                                                   <  2:1042801/137‑1 (MQ=255)                                                              ggTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCCGCAGTGCACCCTCGCTGCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTcgac                                                                                   >  2:1107440/1‑150 (MQ=255)                                                                tGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGt                                                                                                                                          >  2:190014/1‑93 (MQ=255)                                                                tGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGt                                                                                                                                          <  1:190014/93‑1 (MQ=255)                                                                tGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTcgacga                                                                                 <  2:313909/150‑1 (MQ=255)                                                                                     cTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTcgacg                                                                                  >  2:196968/1‑128 (MQ=255)                                                                                     cTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTcgacg                                                                                  <  1:196968/128‑1 (MQ=255)                                                                                     cTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCa                                                            >  2:935910/1‑150 (MQ=255)                                                                                            ctcAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAAt                                                     >  1:953098/1‑150 (MQ=255)                                                                                             tcAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATg                                                    >  1:354384/1‑150 (MQ=255)                                                                                             tcAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATg                                                    >  2:289418/1‑150 (MQ=255)                                                                                             tcAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATg                                                    >  2:1394296/1‑150 (MQ=255)                                                                                             tcAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATg                                                    >  2:1051723/1‑150 (MQ=255)                                                                                                    tGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCcgacga                                             >  1:244719/1‑150 (MQ=255)                                                                                                     gACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGat                                            >  2:1388111/1‑150 (MQ=255)                                                                                                          gaAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCCTTCGCCGATATGGGGTGCCGCGAGCTCCTGAGGAATTCCGACGATATCgg                                       >  2:1084352/1‑150 (MQ=255)                                                                                                             ggCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCAt                                    <  1:1057538/150‑1 (MQ=255)                                                                                                               ccccGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCGCCACCTCCACGCCGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGc                                  >  1:119316/1‑150 (MQ=255)                                                                                                                cccGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCa                                 >  1:382594/1‑150 (MQ=255)                                                                                                                 ccGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCAc                                >  1:1255698/1‑150 (MQ=255)                                                                                                                   gCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCg                                        >  2:1222769/1‑140 (MQ=255)                                                                                                                   gCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCg                                        <  1:1222769/140‑1 (MQ=255)                                                                                                                     aCCCGGCCGTTGAATCAGGCGGTATCGCCTGTTcggccgggtgcggggccttctcgtcaggattgagaatcaaggcctccaggcgctaccttgcaccgggtggtgctgagccactgactacccgtcgccacccgttcgtcgttcttgcag                            <  1:181361‑M2/150‑118 (MQ=255)                                                                                                                         ggCCGTTGAATCAGGCGGTATCGCCTGTTcggccgggtgcggggccttctcgtcaggattgagaatcaaggcctccaggcgctaccttgcaccgggtggtgctgagccac                                                                <  2:382967‑M2/110‑82 (MQ=255)                                                                                                                         ggCCGTTGAATCAGGCGGTATCGCCTGTTcggccgggtgcggggccttctcgtcaggattgagaatcaaggcctccaggcgctaccttgcaccgggtggtgctgagccac                                                                >  1:382967‑M2/1‑29 (MQ=255)                                                                                                                         ggCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCcgcg                                                                   >  1:369230/1‑107 (MQ=255)                                                                                                                         ggCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCcgcg                                                                   <  2:369230/107‑1 (MQ=255)                                                                                                                           ccGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGGTATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTggcgg                      <  2:833686/150‑1 (MQ=255)                                                                                                                            cGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTggcggc                     >  2:498774/1‑150 (MQ=255)                                                                                                                              ttGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAg                   >  2:1134887/1‑150 (MQ=255)                                                                                                                                 gaacAGGCGATACCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACg                >  1:325898/4‑150 (MQ=255)                                                                                                                                 aagcAGGCGGTATCGCCCGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCg                              >  1:1425181/4‑136 (MQ=255)                                                                                                                                 aaTCAGGCGGTATCGCCCGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCg                              <  2:1425181/136‑1 (MQ=255)                                                                                                                                     aGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGc                                  <  1:585031/128‑1 (MQ=255)                                                                                                                                     aGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGc                                  >  2:585031/1‑128 (MQ=255)                                                                                                                                      ggCGGTATCGCCGGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTCGGGGCAGTGAGGGTATTCGACGATATCCTGCGCCGCGACCAGCAGATGCATCCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCg           <  1:1391063/150‑1 (MQ=255)                                                                                                                                       gCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCgg          >  1:753561/1‑150 (MQ=255)                                                                                                                                            aTCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTcgac     <  1:1256869/150‑1 (MQ=255)                                                                                                                                            aTCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTcgac     <  1:1394296/150‑1 (MQ=255)                                                                                                                                              cGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTcgacga   <  2:1374847/150‑1 (MQ=255)                                                                                                                                               gCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTCGACGAg  >  2:1257298/1‑150 (MQ=255)                                                                                                                                                ccTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTgc                                                                         >  1:721431/1‑78 (MQ=255)                                                                                                                                                ccTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTgc                                                                         <  2:721431/78‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                GCTGACGACTGCAAGAACGACGAACGGGTGGCGACGGGTAGTCAGTGGCTCAGCACCACCCGGTGCAAGGTAGCGCCTGGAGGCCTTGATTCTCAATCCTGACGAGAAGGCCCCGCACCCGGCCGTTGAATCAGGCGGTATCGCCTGTTCGGCCGTGGCGCACCACCTCCACGCAGAATTGCCCTTCGTAGGGGGGCACATGGCATTCGACGATATCCTGCGCCGCGACCTGCAGATGAATGCCGACGATATCGGCATGCACCGGTTGGCGGCAGACGTGGCGGTCGACGAG  >  NC_002947/3673896‑3674187

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.