New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	625684 =	45 (1.000)	3 (0.070)	3/234	NT	6.6%	intergenic (‑65/+28)	ppa/mtfA	inorganic pyrophosphatase/glucose‑regulated peptidase
	?	NC_002947	625723 =	42 (0.990)					coding (805/816 nt)	mtfA	glucose‑regulated peptidase

GTGGTTGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGCCTGATGAAG  >  NC_002947/625542‑625831                                                                                                                                               |                                                                                                                                                    gTGGTTGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCt                                                                                                                                              >  2:1101168/1‑150 (MQ=255)   ggTTGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTg                                                                                                                                            <  2:602910/150‑1 (MQ=255)    gTTGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTgg                                                                                                                                           <  1:435720/150‑1 (MQ=255)     ttGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGc                                                                                                                                          <  2:982409/150‑1 (MQ=255)     ttGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGc                                                                                                                                          <  1:694303/150‑1 (MQ=255)     gcgagtacttctttagtgcccctgacctgcttcatcaggcttatccaaaggtctaccaccagttgtcgctgttctaccggcaagacccgctggcgcgcctgtgccggctgcaggcggaacaccccgagtaccgcgaaaGc                                                                                                                                                    <  1:321711‑M1/2‑1 (MQ=255)     gcgagtacttctttagtgcccctgacctgcttcatcaggcttatccaaaggtctaccaccagttgtcgctgttctaccggcaagacccgctggcgcgcctgtgccggctgcaggcggaacaccccgagtaccgcgaaaGc                                                                                                                                                    >  2:321711‑M1/139‑140 (MQ=255)                         gACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCgcaaa                                                                                                                      <  1:948166/150‑5 (MQ=255)                              aGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTg                                                                                                                 <  2:806908/150‑1 (MQ=255)                               gATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTAGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCCGGCGTgg                                                                                                                >  2:631704/1‑150 (MQ=255)                               ctgcttcatcaggcttatccaaaggtctaccaccagttgtcgctgttctaccggcaagacccgctggcgcgcctgtgccggctgcaggcggaacaccccgagtaccgcgaaaGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTgg                                                                                                                <  2:1166410‑M1/38‑1 (MQ=255)                                 gcttcatcaggcttatccaaaggtctaccaccagttgtcgctgttctaccggcaagacccgctggcgcgcctgtgccggctgcaggcggaacaccccgagtaccgcgaaaGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCt                                                                                                              >  1:752314‑M1/111‑150 (MQ=255)                                  cttcatcaggcttatccaaaggtctaccaccagttgtcgctgttctaccggcaagacccgctggcgcgcctgtgccggctgcaggcggaacaccccgagtaccgcgaaaGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCtt                                                                                                             >  1:1166410‑M1/110‑150 (MQ=255)                                       tCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTcgcg                                                                                                        <  2:592903/150‑1 (MQ=255)                                                 tttGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTg                                                                                                                 >  2:755441/1‑131 (MQ=255)                                                 tttGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTg                                                                                                                 <  1:755441/131‑1 (MQ=255)                                                      ccgccgGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTc                                                                                         >  1:960403/1‑150 (MQ=255)                                                       cgccgGCATCTGGCGGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGGCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTcc                                                                                        >  2:539294/1‑150 (MQ=255)                                                       cgccgGAATCTTGCTGTAGCCAATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGACTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCCTGGCTTTCGCGGTCCTCGGGGTGTTcc                                                                                        >  2:362220/1‑150 (MQ=255)                                                        gccgGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCg                                                                                       >  2:389371/1‑150 (MQ=255)                                                         ccgGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGtt                                                                                          <  1:349423/146‑1 (MQ=255)                                                         ccgGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGtt                                                                                          >  2:349423/1‑146 (MQ=255)                                                           ggAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTg                                                                                                                 <  2:76675/121‑1 (MQ=255)                                                           ggAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTg                                                                                                                 >  1:76675/1‑121 (MQ=255)                                                                   gCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGcaag                                                                            <  1:645783/150‑4 (MQ=255)                                                                         gcacATTGGTCAGCGCCCCCGTGTTTGACCAAAAGTTGGCGGCGTTTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAgg                                                                      <  1:34395/147‑1 (MQ=255)                                                                         gCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCgg                                                                                                >  1:1000069/1‑124 (MQ=255)                                                                         gCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCgg                                                                                                <  2:1000069/124‑1 (MQ=255)                                                                         gCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAgg                                                                      >  2:89137/1‑150 (MQ=255)                                                                             aTTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGgcgcg                                                                  >  1:741701/1‑150 (MQ=255)                                                                                 ggCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAg                                                              >  2:234814/1‑150 (MQ=255)                                                                                        cccccGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCt                                                       >  1:775157/1‑150 (MQ=255)                                                                                          cccGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTc                                                        >  1:705087/1‑147 (MQ=255)                                                                                          cccGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTc                                                        <  2:705087/147‑1 (MQ=255)                                                                                          cccGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTg                                                     <  1:89137/150‑1 (MQ=255)                                                                                           ccGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGc                                                    <  1:860767/150‑1 (MQ=255)                                                                                            cGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGcc                                                   <  1:1184784/150‑1 (MQ=255)                                                                                                      cAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGcc                                                                                     >  2:260172/1‑106 (MQ=255)                                                                                                      cAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGcc                                                                                     <  1:260172/106‑1 (MQ=255)                                                                                                      cAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCCTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAg                                         >  1:971284/1‑150 (MQ=255)                                                                                                       aaaaaGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGc                                        <  1:911079/150‑1 (MQ=255)                                                                                                                        ataGGCACATTCTGCCGGGCCACGCCACGCGTGGCCTGATGTGCGGGCCCGTTAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGTACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGAc                       >  1:943964/1‑150 (MQ=255)                                                                                                                            gCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCttt                   >  1:710133/1‑150 (MQ=255)                                                                                                                              acaTTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGc                                                    <  2:615022/115‑1 (MQ=255)                                                                                                                              acaTTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGc                                                    >  1:615022/1‑115 (MQ=255)                                                                                                                              acaTTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTgg                 >  1:752722/1‑150 (MQ=255)                                                                                                                                  tCTGCCGGGGTACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATaa             <  1:602274/150‑1 (MQ=255)                                                                                                                                    tGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGc           <  2:741701/150‑1 (MQ=255)                                                                                                                                     gCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGcc          <  1:389371/150‑1 (MQ=255)                                                                                                                                         gggCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGCCtgat      <  1:631704/150‑1 (MQ=255)                                                                                                                                             acgccacgcTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGCCTGATGAAg  <  2:960403/150‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                    GTGGTTGGCCGGGATCTCGATGGCGACGTAGATGTCGTTCGGCAGGTCTTTGCCCGCCGGAATCTTGCTGTAGCTCATTGGGCAGTGCCCCCGTGTTTGACCAAAAAGTGGCGGCGATTATAGGCACATTCTGCCGGGGCACGCCACGCTTGGCCTGATGTGCGGGCCCGTCAGGCGTGGCTTTCGCGGTACTCGGGGTGTTCCGCCTGCAGCCGGCACAGGCGCGCCAGCGGGTCTTGCCGGTAGAACAGCGACAACTGGTGGTAGACCTTTGGATAAGCCTGATGAAG  >  NC_002947/625542‑625831

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.