New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2239668 =	49 (0.910)	3 (0.060)	3/250	NT	6.1%	coding (69/1164 nt)	PP_1976	HlyD family secretion protein
	?	NC_002947	2239702 =	45 (0.870)					coding (35/1164 nt)	PP_1976	HlyD family secretion protein

TCGTAGAAGCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTGCGCCATCGCCTA  >  NC_002947/2239525‑2239808                                                                                                                                                |                                                                                                                                             tcGTAGAAGCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAgcggcg                                                                                                                                           >  2:199206/1‑147 (MQ=255) gggcgatgtaggcagtgccgacatgggggtcgccggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGgcgc                                                                                                                                          <  7:116058‑M1/5‑1 (MQ=255)    tAGAAGCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAggg                                                                                                                                      >  3:165911/1‑149 (MQ=255)     gatgtaggcagtgccgacatgggggtcgccggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGgc                                                                                                                                            >  4:257804‑M1/140‑142 (MQ=255)     gatgtaggcagtgccgacatgggggtcgccggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGgc                                                                                                                                            <  3:257804‑M1/3‑1 (MQ=255)         gCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGt                                                                                                                                 >  7:176448/1‑149 (MQ=255)         gCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGACCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGt                                                                                                                                 <  7:177706/149‑1 (MQ=255)             cccTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGa                                                                                                                              >  2:156917/1‑148 (MQ=255)                           gTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACTGCGGCGCAGGGCCCGTCGCCAATTGACGTTcgcg                                                                                                               >  5:269953/1‑149 (MQ=255)                                gccggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCAtt                                                                                                          <  7:141835‑M1/37‑1 (MQ=255)                                gccggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCAtt                                                                                                          >  6:166208‑M1/113‑149 (MQ=255)                                 cAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTg                                                                                                         <  8:176448/149‑1 (MQ=255)                                   ggtaggcgatggcgcaatacgcgtgcgtacggtggtcatggagagtctcgaacgaaagatgaaacaaaggcgggatgttagcaggaggcgggcaccgggctccagcaatGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCt                                                                                                       >  8:141835‑M1/110‑149 (MQ=255)                                   ggAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCt                                                                                                       >  2:17344/1‑149 (MQ=255)                                   ggAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCt                                                                                                       <  8:199079/149‑1 (MQ=255)                                    gAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCTGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTg                                                                                                      <  2:22418/149‑1 (MQ=255)                                    gAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTg                                                                                                      <  1:156917/149‑1 (MQ=255)                                           aGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCg                                                                                               <  8:76041/149‑1 (MQ=255)                                                 atgatgGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGccc                                                                                         <  5:132425/149‑1 (MQ=255)                                                    atgGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGc                                                                                       <  1:321417/148‑1 (MQ=255)                                                     tgGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGcct                                                                                     >  2:316199/1‑149 (MQ=255)                                                      ggCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGt                                                                                                                    >  3:226260/1‑117 (MQ=255)                                                        ccacaaGGGCGAAGAAGAGCGTCAGGAGGCGATTGAGTAGTGCAGGAATGGGGACTATAGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGCCACGTGACGTTCGCGCCATTGATGGAGCCCGGTGCACGgcacct                                                                                  >  4:80804/1‑149 (MQ=255)                                                           ccaGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCt                                                                               <  1:316199/149‑1 (MQ=255)                                                            caGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCt                                                                               >  1:15861/1‑148 (MQ=255)                                                                           cGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGt                                                               >  6:103221/1‑149 (MQ=255)                                                                             tCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATGGTTCCAGAAATTTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCGATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGttt                                                             <  6:114879/149‑1 (MQ=255)                                                                               aGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCa                                                           <  5:103221/149‑1 (MQ=255)                                                                                ggcggcGTTCGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCAt                                                          >  2:183942/1‑149 (MQ=255)                                                                                 gcggcgTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATc                                                         >  3:96103/1‑149 (MQ=255)                                                                                  cggcgTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCt                                                        <  2:15861/149‑1 (MQ=255)                                                                                   ggcgTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCtt                                                       <  4:165911/149‑1 (MQ=255)                                                                                      gTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCttt                                                                 <  4:219473/136‑1 (MQ=255)                                                                                      gTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCttt                                                                 >  3:219473/1‑136 (MQ=255)                                                                                      gTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTttcg                                                    >  6:312302/1‑149 (MQ=255)                                                                                       tttGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTttcgt                                                   >  8:116058/1‑149 (MQ=255)                                                                                          gAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTttcgttc                                                 <  1:199206/148‑1 (MQ=255)                                                                                                ggcaggcaTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGttt                                                             >  5:172177/1‑130 (MQ=255)                                                                                                ggcaggcaTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGttt                                                             <  6:172177/130‑1 (MQ=255)                                                                                                   aggcaTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTcc                                       <  1:17344/149‑1 (MQ=255)                                                                                                    ggcaTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCa                                      <  1:183942/149‑1 (MQ=255)                                                                                                       aTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGa                                   >  6:255509/1‑149 (MQ=255)                                                                                                       aTGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGa                                   <  5:312302/149‑1 (MQ=255)                                                                                                               tATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCgag                                              >  4:336805/1‑130 (MQ=255)                                                                                                               tATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCgag                                              <  3:336805/130‑1 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATccc                                                                       >  3:295485/1‑103 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATccc                                                                       <  4:295485/103‑1 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATccc                                                                       <  4:290712/103‑1 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATccc                                                                       >  3:290712/1‑103 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGacca                                <  2:336500/142‑1 (MQ=255)                                                                                                                 tCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGacca                                >  1:336500/1‑142 (MQ=255)                                                                                                                       cAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCAcgcg                   >  3:218139/1‑149 (MQ=255)                                                                                                                               tAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTgcg            <  5:255509/148‑1 (MQ=255)                                                                                                                                aaaCAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTgc             <  7:44142/146‑1 (MQ=255)                                                                                                                                aaaCAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTgc             >  8:44142/1‑146 (MQ=255)                                                                                                                                        ttAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTGCGCCATCGCCTa  >  6:35177/1‑149 (MQ=255)                                                                                                                                                |                                                                                                                                             TCGTAGAAGCGGCCCTTGAAGTACCAGTGGCCCAGGAAGGCGAGGGCGATGATGGCCACCAGGGCGAAGAAGAGCGTCAGGCGGCGTTTGAGTTGGGCAGGCATGGGGACTATCGTTCCAGAAATGTAAACAAATTTAACAGCGGCGCAGGGCCCGTCGACAAGTGACGTTCGCGCCATTGCTGGAGCCCGGTGCCCGCCTCCTGCTAACATCCCGCCTTTGTTTCATCTTTCGTTCGAGACTCTCCATGACCACCGTACGCACGCGTATTGCGCCATCGCCTA  >  NC_002947/2239525‑2239808

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.