New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4578249	0 (0.000)	32 (1.400)	23/250	0.1	100%	intergenic (+64/‑73)	PP_4054/glgX	hypothetical protein/glycogen debranching enzyme
	?	NC_002947	= 5763126	NA (NA)					intergenic (+145/+373)	PP_5050/PP_5051	transposase/hypothetical protein

AAGGCGGCTGCCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4578108‑4578249 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtaggagATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  <  NC_002947/5763126‑5762992                                                                                                                                                                                                                                                                                       AAGGCGGCTGCCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATG                                                                                                                                               >  1:574543/1‑136         TGCCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGAT                                                                                                                                       <  2:475926/136‑1         TGCCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGAT                                                                                                                                       <  2:338793/136‑1           CCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTC                                                                                                                                     >  2:571880/1‑136           CCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCCGGTAAACCCGCTCCTACAGGTTCAACACAGGCCCATGTAGGAGATTC                                                                                                                                     >  1:443907/1‑136                        TAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGC                                                                                                                        >  2:151976/1‑136                        TAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGC                                                                                                                        >  2:619266/1‑136                             CCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATT                                                                                                                   <  1:243144/136‑1                                   CGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGT                                                                                                             >  1:265597/1‑136                                              CCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCAT                                                                                                  <  2:552315/136‑1                                                 CGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGG                                                                                               <  2:574543/136‑1                                                     CGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTC                                                                                           >  1:530134/1‑136                                                       GTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTC                                                                                         <  2:555056/136‑1                                                              AGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAA                                                                                  <  1:399757/136‑1                                                                               GCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCA                                                                 >  2:100614/1‑136                                                                                  TGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCG                                                              <  2:99833/136‑1                                                                                  TGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCG                                                              <  1:571880/136‑1                                                                                       GGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCA                                                         >  1:69318/1‑136                                                                                       GGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAA                                                                                  >  1:156001/1‑111                                                                                       GGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAA                                                                                  <  2:156001/111‑1                                                                                                CGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTC                                                >  2:351339/1‑136                                                                                                 GCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCT                                               <  1:628710/136‑1                                                                                                 GCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCT                                               <  1:100614/136‑1                                                                                                   GGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCC                                             <  2:112612/136‑1                                                                                                           CCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTGAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGAGCCAGAGAATATCTCCCCAGCATT                                     >  2:72844/1‑136                                                                                                           CCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATT                                     >  2:121313/1‑136                                                                                                                  TACAGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACT                              >  1:576662/1‑136                                                                                                                     AGGTTCATCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCC                           <  1:631575/136‑1                                                                                                                            TCACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGT                    >  2:380023/1‑136                                                                                                                             CACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTT                   <  1:619266/136‑1                                                                                                                             CACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTT                   <  1:151976/136‑1                                                                                                                              ACAGGCGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTT                  >  2:304645/1‑136                                                                                                                                   CGCATGTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCG             >  1:529967/1‑136                                                                                                                                        GTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGTGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTG        >  2:295567/1‑136                                                                                                                                        GTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTG        >  2:303371/1‑136                                                                                                                                        GTAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTG        >  1:421700/1‑136                                                                                                                                         TAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGG           <  1:298995/132‑1                                                                                                                                         TAGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGG           >  2:298995/1‑132                                                                                                                                          AGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCG      >  1:403487/1‑136                                                                                                                                          AGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCG      <  2:380459/136‑1                                                                                                                                          AGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCG      <  2:603669/136‑1                                                                                                                                          AGGAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCG      <  1:624921/136‑1                                                                                                                                            GAGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTT    <  1:266390/136‑1                                                                                                                                             AGATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTG   >  2:305524/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  2:572770/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  2:119082/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  2:503018/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  2:483242/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  2:417617/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  1:477210/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  >  1:256000/1‑136                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAG                                                                    >  2:135419/1‑70                                                                                                                                              GATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAG                                                                    <  1:135419/70‑1                                                                                                                                                                                                                                                                                       AAGGCGGCTGCCCTGCCGGGGGTTAAACCCACTGCGGTGAAAAAGCCCCGGGCGGTGAAAAAGCCTACTGCCGGTTAAGCCTGTCCGGGCCTCTTCGCGGGTAAACCCGCTCCTACAGGTTCATCACAGGCGCATGTAGGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4578108‑4578249 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtaggagATTCTATGGCCGGAGGCAAATTTTCAGTAAAAACGCCATCGGCCTCTCTCAGCAACCTCGAGGTACGAGTCAGCGTGCCAGAGAATTTCTCCCCAGCATTGGATACTGCCCGTCAGTTTGGGCGGGCTGCGTTGC  <  NC_002947/5763126‑5762992

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