New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3694376	49 (0.770)	4 (0.070)	4/240	NT	8.2%	coding (1792/2502 nt)	ligD	DNA ligase D
	?	NC_002947	= 3694424	43 (0.710)					coding (1744/2502 nt)	ligD	DNA ligase D

GCGCGATTGATGACCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCTTGGCCTGC  >  NC_002947/3694276‑3694563                                                                                                                                                      |                                                                                                                                             gcgcGATTGATGACCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCtt                                                                                                                                              <  4:130182/149‑1 (MQ=255) gcgcGATTGATGACCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCtt                                                                                                                                              >  1:70543/1‑149 (MQ=255) gcgaGATTGATGACCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCtt                                                                                                                                              >  8:355996/1‑149 (MQ=255)         gatgaCCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCtgtg                                                                                                                                      >  7:195702/1‑149 (MQ=255)          atgaCCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCtgtg                                                                                                                                      <  6:260889/148‑1 (MQ=255)          atgaCCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCtgtg                                                                                                                                      <  8:195702/148‑1 (MQ=255)               cATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTAGAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAG‑CGGGCGGTGCTTGAGCTGTGGCAGGa                                                                                                                                <  1:69827/149‑1 (MQ=255)                    cTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCAc                                                                                                                           <  5:178533/149‑1 (MQ=255)                        cTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACGAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGc                                                                                                                       <  2:70543/149‑1 (MQ=255)                         tGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCt                                                                                                                      >  2:327939/1‑149 (MQ=255)                           gccggccTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCACTCGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCt                                                                                                                      <  1:67405/148‑1 (MQ=255)                                      cctTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTaa                                                                                                         <  7:355996/149‑1 (MQ=255)                                      cctTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTaa                                                                                                         <  1:363757/149‑1 (MQ=255)                                             gtatgtGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGGGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCgg                                                                                                 <  7:68221/144‑1 (MQ=255)                                              tAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATcc                                                                                                                             >  3:393302/1‑121 (MQ=255)                                              tAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATcc                                                                                                                             <  4:393302/121‑1 (MQ=255)                                                               tATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTca                                                                               >  8:131182/1‑149 (MQ=255)                                                                aggTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGGCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTcac                                                                              <  3:324832/147‑1 (MQ=255)                                                                 tGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTcaca                                                                             >  6:207046/1‑149 (MQ=255)                                                                 tGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTcaca                                                                             >  7:200398/1‑149 (MQ=255)                                                                   tACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACAcc                                                                           >  3:97611/1‑149 (MQ=255)                                                                   tACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACAAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACAcc                                                                           >  5:403530/1‑149 (MQ=255)                                                                       gTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCgtg                                                                       <  4:97611/149‑1 (MQ=255)                                                                            cccGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTggg                                                                  <  1:4543/149‑1 (MQ=255)                                                                              cgcgTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTc                                                                                          <  5:179056/123‑1 (MQ=255)                                                                              cgcgTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTc                                                                                          >  6:179056/1‑123 (MQ=255)                                                                                          gaagaaCAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTgagctgttcttccagaaaaacgcgggccaactgtacatacccaacgtactcagctacgaaaaggccgaggccggccaggcagcgatggt                                                     <  1:289775‑M2/149‑90 (MQ=255)                                                                                           aagaaCAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTc                                                   >  5:280497/1‑149 (MQ=255)                                                                                              aaCAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAACTACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCgg                                                 <  1:112367/149‑1 (MQ=255)                                                                                               aCAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCgggg                                               >  8:86894/1‑149 (MQ=255)                                                                                                cAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTgagctgttcttccagaaaaacgcgggccaactgtacatacccaacgtactcagctacgaaaaggccgaggccg                                                                     >  8:200753‑M2/1‑54 (MQ=255)                                                                                                cAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTgagctgttcttccagaaaaacgcgggccaactgtacatacccaacgtactcagctacgaaaaggccgaggccg                                                                     <  7:200753‑M2/127‑74 (MQ=255)                                                                                                cAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGgggt                                              >  1:209972/1‑149 (MQ=255)                                                                                                 aGCTCGCCGGCCAGGCCGTCCGGGGCGCGCACCTAAGCCCC‑CGGGCCGGGCATGCGCTGTGGCAGGATCCACTGGGTGATGCCACCGAAA‑TACTCGGCCACTTCGAGCTAGGACAGACCCGTGGAGGGCTCGAGGACCCCCTCGgggtg                                             >  8:228300/1‑149 (MQ=255)                                                                                                  gCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGgggtgg                                            <  7:131182/149‑1 (MQ=255)                                                                                                   cTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGAcc                                                        >  6:299315/1‑136 (MQ=255)                                                                                                   cTCGCCGCCCAGGCCCTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGAcc                                                        <  5:299315/136‑1 (MQ=255)                                                                                                        cgccCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGc                                      <  8:200398/149‑1 (MQ=255)                                                                                                                      ggggCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAg                        <  5:207046/149‑1 (MQ=255)                                                                                                                       gggCGCGCACAAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAgg                       <  6:403530/149‑1 (MQ=255)                                                                                                                        ggCGCGCACCAATGCCCC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGAGGCCAGCGTAA‑TACTCGGCGAGTTGGCGCTTGGTCACACCCGGGGTGGGGTCGATGACCCGGGCGGGGTGGGTCAGCCGCAGTTCACCCAGGt                      <  7:228300/149‑1 (MQ=255)                                                                                                                         gcgcgcACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGtt                     <  7:86894/149‑1 (MQ=255)                                                                                                                           gcgcACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTtct                   >  4:167280/1‑149 (MQ=255)                                                                                                                             gcACCAATGCCAC‑CGGGCGGTGCTTgagctgttcttccagaaaaacgcgggccaactgtacatacccaacgtactcagctacgaaaaggccgaggccggccaggcagcgatggtcatcaatcgcgccgatacgctgctgggtgcggtgc                  >  2:289775‑M2/1‑25 (MQ=255)                                                                                                                                 cAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCa                                        >  2:401595/1‑122 (MQ=255)                                                                                                                                 cAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCa                                        <  1:401595/122‑1 (MQ=255)                                                                                                                                     gCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCtt         >  1:157783/1‑149 (MQ=255)                                                                                                                                      ccAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGTCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTAGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACTCATTg        >  8:309977/1‑149 (MQ=255)                                                                                                                                      ccAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCTTg        <  7:13916/149‑1 (MQ=255)                                                                                                                                        aC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTtct                   >  3:238256/1‑136 (MQ=255)                                                                                                                                        aC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTtct                   <  4:238256/136‑1 (MQ=255)                                                                                                                                        aC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCTTGGc      <  2:209972/149‑1 (MQ=255)                                                                                                                                             ggCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCTTGGCCTGc  >  4:374138/1‑149 (MQ=255)                                                                                                                                                      |                                                                                                                                             GCGCGATTGATGACCATCGCTGCCTGGCCGGCCTCGGCCTTTTCGTAGCTGAGTACGTTGGGTATGTACAGTTGGCCCGCGTTTTTCTGGAAGAACAGCTCGCCGCCCAGGCCGTCCGGGGCGCGCACCAATGCCAC‑CGGGCGGTGCTTGAGCTGTGGCAGGATCCACTGGCTGATGCCAGCGTAA‑TACTCGGCGACTTCGCGCTTGGTCACACCCGTGGTGGGGTCGATGACCCGGTCGGGGTGGGTCAGCCGCAGTTCACCCAGGTTCTCAGACGCCTTGGCCTGC  >  NC_002947/3694276‑3694563

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.