New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4861197	86 (1.440)	15 (0.320)	12/190	NT	18.2%	intergenic (‑103/+134)	ligA/PP_4275	DNA ligase/cell division protein ZipA
	?	NC_002947	= 4861238	67 (1.410)					intergenic (‑144/+93)	ligA/PP_4275	DNA ligase/cell division protein ZipA

GTAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4861032‑4861197 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctcttcgcgggtaaacccgctccTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAGAGAAGACAAATCCCATGAC  <  NC_002947/4861238‑4861090                                                                                                                                                                                                                                                                                                                             GTAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCT                                                                                                                                                                          <  2:175344/147‑1 GTAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCT                                                                                                                                                                          >  1:175344/1‑147  TAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTGCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGC                                                                                                                                                                      >  2:1620777/1‑150  TAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGC                                                                                                                                                                      <  2:525459/150‑1    GCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGG                                                                                                                                                                    <  2:650785/150‑1     CGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGGGCCAGCCTCTTCGCGGG                                                                                                                                                                   <  2:279531/150‑1       ATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTA                                                                                                                                                                 >  1:1590238/1‑150                 TGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCC                                                                                                                                                       >  2:1630791/1‑150                          TCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCT                                                                                                                                                                            >  2:822610/1‑120                          TCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCT                                                                                                                                                                            <  1:822610/120‑1                             GCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGC                                                                                                                                                          <  1:125567/135‑1                             GCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGC                                                                                                                                                          >  2:125567/1‑135                                        GAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAAC                                                                                                                                                              <  1:1336451/120‑1                                        GAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAAC                                                                                                                                                              >  2:1336451/1‑120                                           GATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGC                                                                                                                                                                              <  2:80166/101‑1                                           GATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGC                                                                                                                                                                              >  1:80166/1‑101                                                        GCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTG                                                                                                                >  1:1047734/1‑150                                                                 GGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGG                                                                                                       <  2:1047734/150‑1                                                                 GGATTTGTCATTTCTTGTAAAGCACAAGCGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAGCCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGG                                                                                                       <  2:1025995/150‑1                                                                   ATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGCGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGT                                                                                                     <  2:1103106/150‑1                                                                        TCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACC                                                                                                <  1:1558900/150‑1                                                                          TTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGATCGGGTTTACCCG                                                                                              >  2:238856/1‑150                                                                            CTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGC                                                                                             >  1:552379/1‑149                                                                            CTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGC                                                                                             <  2:552379/149‑1                                                                            CTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGG                                                                                                      <  2:1358917/140‑1                                                                            CTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGG                                                                                                      >  1:1358917/1‑140                                                                                  CAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGG                                                                                      <  1:238856/150‑1                                                                                   AAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGC                                                                                     >  1:337098/1‑150                                                                                   AAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACC                                                                                                                                        <  1:1453083/99‑1                                                                                   AAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACC                                                                                                                                        >  2:1453083/1‑99                                                                                     AGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTG                                                                                   <  2:337098/150‑1                                                                                                                                              GCCTCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTT                          >  1:1419778/1‑150                                                                                                                                                 TCTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCA                       >  2:31673/1‑150                                                                                                                                                  gttgtCGGGTAAACCCGCTCCTAGAGGTATTTCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCAGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCGCTTTTGCTTTGCAA                      <  2:344111/145‑1                                                                                                                                                  CTTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAA                      <  1:1534465/150‑1                                                                                                                                                   TTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAG                     >  1:784022/1‑150                                                                                                                                                   TTCGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAG                     <  2:1384583/150‑1                                                                                                                                                     CGCGGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAGAG                   <  2:548155/150‑1                                                                                                                                                        GGGTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAGAGAAG                >  2:1391767/1‑150                                                                                                                                                          GTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCT                                                                <  1:281947/100‑1                                                                                                                                                          GTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCT                                                                >  2:281947/1‑100                                                                                                                                                          GTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTG                                                                                   >  2:499139/1‑81                                                                                                                                                          GTAAACCCGCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTG                                                                                   <  1:499139/81‑1                                                                                                                                                                  GCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCCCCCCAAGCTGCTCTTTTGCTTTGCAAGAGAAGACAAATCCCA      <  2:1550711/150‑1                                                                                                                                                                  GCTCCTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAGAGAAGACAAATCCCA      >  2:668496/1‑150                                                                                                                                                                      CTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAATCTGCTCTTTTGCTTTGCAAGAGAAGACAAATCCCATGAC  >  1:268871/1‑150                                                                                                                                                                                                                                                                                                                             GTAGCGATAATTGTGCTGATCGAGCTCGGCACGCAGTTCGAGGATACGGGTTTCGGCGGTCATGGGATTTGTCTTCTCTTGCAAAGCAAAAGAGCAGCTTGGGGTGGTGCGTGGGGTTCCAGGTGTCTGTTGACTGTGCCAGCCTCTTCGCGGGTAAACCCGCTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4861032‑4861197 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcctcttcgcgggtaaacccgctccTACAGGTACATCACCGCCCTAGGGCATGTGACGCCCTTGTGGGAGCGGGTTTACCCGCGAAGAGGCTGGCACAGTCAACAGACACCTGGAACCCCACGCACCACCCCAAGCTGCTCTTTTGCTTTGCAAGAGAAGACAAATCCCATGAC  <  NC_002947/4861238‑4861090

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.