New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6060446 =	66 (1.310)	3 (0.060)	3/238	NT	5.5%	intergenic (+82/+99)	PP_5311/PP_5312	signal transduction protein/hypothetical protein
	?	NC_002947	6060503 =	43 (0.930)					intergenic (+139/+42)	PP_5311/PP_5312	signal transduction protein/hypothetical protein

CGCATTAAGCATTAACACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTCCTGAATCCCTTGCATG  >  NC_002947/6060357‑6060650                                                                                                                                                     |                                                                                                                                                      cGCATTAAGCATTAACACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACCGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑c                                                                                                                                                    <  7:222121/149‑1 (MQ=255) cGCATTAAGCATTAACACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑c                                                                                                                                                    <  8:22239/149‑1 (MQ=255)  gcattaagcattaaCACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑cc                                                                                                                                                   >  6:107247/1‑149 (MQ=255)            ttaaCACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCcaca                                                                                                                                        <  5:317787/149‑1 (MQ=255)              aaCACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAg                                                                                                                                       <  1:121210/148‑1 (MQ=255)               acacATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAgg                                                                                                                                      >  4:194544/1‑148 (MQ=255)               acacATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAgg                                                                                                                                      >  8:296029/1‑148 (MQ=255)                   aTAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGAGGGCACG‑CCC‑GCTCCCACAGGTAAAg                                                                                                                                 >  5:93613/1‑149 (MQ=255)                    tAGCCTGTGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGACACG‑CCC‑GCTCCCACAGGTAAAGc                                                                                                                                <  5:185733/149‑1 (MQ=255)                        cTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGtca                                                                                                                            <  7:296029/149‑1 (MQ=255)                          gCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑g                                                                                                                                                >  6:45846/1‑127 (MQ=255)                          gCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑g                                                                                                                                                <  5:45846/127‑1 (MQ=255)                           cGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGtcatc                                                                                                                          <  8:188883/148‑1 (MQ=255)                           cGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGtcat                                                                                                                           <  3:239919/147‑1 (MQ=255)                                 cAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATcccc                                                                                                                    <  8:285359/148‑1 (MQ=255)                                  aaCTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGt                                                                                                                  >  5:90046/1‑149 (MQ=255)                                  aaCTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGt                                                                                                                  >  5:200054/1‑149 (MQ=255)                                   aCTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCcaca                                                                                                                                        <  1:67354/126‑1 (MQ=255)                                   aCTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCcaca                                                                                                                                        >  2:67354/1‑126 (MQ=255)                                     tGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGtc                                                                                                                             >  1:42322/1‑135 (MQ=255)                                     tGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGtc                                                                                                                             <  2:42322/135‑1 (MQ=255)                                       tCTTTCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCggg                                                                                                              <  2:266120/148‑1 (MQ=255)                                       tCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGGCGGTGCCATGCACCACGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCg                                                                                                                <  1:92753/148‑1 (MQ=255)                                       tCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTc                                                                                                                 <  5:254526/145‑1 (MQ=255)                                       tCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTc                                                                                                                 >  6:254526/1‑145 (MQ=255)                                         ttGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCtt                                                                                                           >  2:107916/1‑149 (MQ=255)                                             tCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGGAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGc                                                                                                       >  1:102049/1‑149 (MQ=255)                                                 tttCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCCGAGGTAAAGCGTCATCTTCCCCGTCGGGCTTCAGCCttt                                                                                                   >  7:123051/1‑149 (MQ=255)                                                    cTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTttct                                                                                                 <  1:207284/148‑1 (MQ=255)                                                       aCAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTtcttct                                                                                              <  6:90046/148‑1 (MQ=255)                                                       aCAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTtcttct                                                                                              <  6:200054/148‑1 (MQ=255)                                                         aGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTg                                                                                           <  1:128780/149‑1 (MQ=255)                                                              gcgcGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTg                                                                                           >  2:294587/1‑144 (MQ=255)                                                              gcgcGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTg                                                                                           <  1:294587/144‑1 (MQ=255)                                                                gcgATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTACCACAGGTAAAGCGTCATCATACCCGTCGGGCTTCAGCCATTCTTCTTTGGTTTAAg                                                                                    >  4:225634/1‑149 (MQ=255)                                                                  gATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGt                                                                                  <  5:107247/149‑1 (MQ=255)                                                                    ttttGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTAt                                                                                >  3:110689/1‑149 (MQ=255)                                                                         gACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTtca                                                                            <  3:194544/148‑1 (MQ=255)                                                                         gACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTtca                                                                            <  5:28392/148‑1 (MQ=255)                                                                              tgGGAGCGGGCTTGCCCGCGGACACCGGCGAAGCCGGTGCCCTGCAC‑‑CGGGTCGCTTGTTTAGCGGGCACG‑CCC‑GCGCCCCCAGGGAAAGCGGCCTCCTCCCCGTCGGGGTTCCGCCGTTCGTCGTTGGGTTGAGGGATTTGATCAAcc                                                                      >  2:56415/1‑149 (MQ=18)                                                                                        cTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACca                                                            <  3:225634/149‑1 (MQ=255)                                                                                             CCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCAACAGGTAAAGCGTCATAATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCa                                                       <  6:297097‑M1/149‑1 (MQ=255)                                                                                              cccgcgaaacaagcgacgcggtgcatggcaccggcttcgccggtgttcgcgggcaCG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCt                                                                   >  7:33126‑M2/56‑138 (MQ=255)                                                                                              cccgcgaaacaagcgacgcggtgcatggcaccggcttcgccggtgttcgcgggcaCG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCt                                                                   <  8:33126‑M2/83‑1 (MQ=255)                                                                                               ccgcgaaacaagcgacgcggtgcatggcaccggcttcgccggtgttcgcgggcaCG‑CCC‑GCTCCCACAGGTAAAGTGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCa                                                       >  2:96142‑M2/55‑149 (MQ=255)                                                                                                     acCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATc                                                        >  7:125933/1‑140 (MQ=255)                                                                                                     acCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATc                                                        <  8:125933/140‑1 (MQ=255)                                                                                                            aaGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACGTCCCGGCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGtt                                          <  1:107916/149‑1 (MQ=255)                                                                                                                     ccATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCt                               <  6:93613/149‑1 (MQ=255)                                                                                                                                     gCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTcc                 <  6:88768/149‑1 (MQ=255)                                                                                                                                               cgggcaCG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTCCTGAATCCCtt       <  2:102049‑M2/143‑1 (MQ=255)                                                                                                                                                   caCG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTCCTGAATCCCTTGCAt   >  6:58459‑M2/3‑149 (MQ=255)                                                                                                                                                    aCG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTCCTGAATCCCTTGCATg  <  4:110689‑M2/148‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                      CGCATTAAGCATTAACACATAGCCTGCGGGAGCAACTGTCTTGCTCAATTTCTAACAGCTGGCGCGATTTTGGACTGTGGGAGCGGGCTTGCCCGCGAACACCGGCGAAGCCGGTGCCATGCAC‑‑CGCGTCGCTTGTTTCGCGGGCACG‑CCC‑GCTCCCACAGGTAAAGCGTCATCATCCCCGTCGGGCTTCAGCCTTTCTTCTTTGGTTTCAGGTATTTCATCAACCCCTGGAACCACATCACCAGCGCCGGGTTGCCCTTGATCTGGATGTGCTTGTCCTGAATCCCTTGCATG  >  NC_002947/6060357‑6060650

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.