New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5742048	28 (0.880)	4 (0.130)	4/236	NT	11.7%	coding (162/597 nt)	PP_5039	hypothetical protein
	?	NC_002947	= 5742064	34 (1.130)					coding (146/597 nt)	PP_5039	hypothetical protein

CTGCATGGCGACCACCTGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAACCGAACCACCATTCCAGCAAC  >  NC_002947/5741913‑5742189                                                                                                                                        |                                                                                                                                               cTGCATGGCGACCACCTGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATAATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGC                                                                                                                                                <  2:480922‑M1/136‑1 (MQ=255) cTGCATGGCGACCACCTGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATAATGCGTGGCAGCTGGTAGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGC                                                                                                                                                >  1:480922‑M1/1‑136 (MQ=255)             caccTGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAg                                                                                                                      <  2:577390/150‑1 (MQ=255)                 tGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCg                                                                                                                 >  2:182875/1‑150 (MQ=255)                     cACGCCGCGCGCCTTCGAGGGCGACCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCaa                                                                                                             >  2:738331/1‑150 (MQ=255)                      aCGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCaaa                                                                                                            >  1:2883/1‑150 (MQ=255)                        gCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCg                                                                                                                 >  2:731200/1‑143 (MQ=255)                        gCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCg                                                                                                                 <  1:731200/143‑1 (MQ=255)                                   tCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCg                                                                                               >  1:335092/1‑150 (MQ=255)                                            cgcgGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCCAACAGCGCACGGGCGTCGGCATCg                                                                                      <  2:652992/150‑1 (MQ=255)                                                     tCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTg                                                                             <  1:718291/150‑1 (MQ=255)                                                     tCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCGGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGACGGCATCGTAATGCTTg                                                                             >  1:725043/1‑150 (MQ=255)                                                       gcgGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCacgccctggcgggtgggctcgaagagt                                                                                                                     <  1:292658‑M1/109‑28 (MQ=255)                                                       gcgGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCacgccctggcgggtgggctcgaagagt                                                                                                                     >  2:292658‑M1/1‑82 (MQ=255)                                                          gTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGaa                                                                        <  1:182875/150‑1 (MQ=255)                                                             gATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACca                                                                     >  2:113660/1‑150 (MQ=255)                                                                cATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAgcgc                                                                                                      >  2:594867/1‑114 (MQ=255)                                                                cATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAgcgc                                                                                                      <  1:594867/114‑1 (MQ=255)                                                                 aTGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGTGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGc                                                                 <  2:320218/150‑1 (MQ=255)                                                                            cTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTCATGCTTGCCGAACCACAGCGTGCTCTtctc                                                      <  1:807983/150‑1 (MQ=255)                                                                                     cAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCAc                                             <  2:2883/150‑1 (MQ=255)                                                                                      aaaaTCAGCAGGACCAGCCAGCACTGCGGGGTTAGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACg                                            <  2:359807/150‑1 (MQ=255)                                                                                            atcagGCCCAGCCAGCCCCGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGTGTGCTCGACCAGG‑TCGCCAAACAGCGAATTGGCGTCGGCATCGTAACGCCTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTgg                                      <  2:289624/148‑1 (MQ=255)                                                                                                   ccagccagCCCTGCGGGGTTTGCTGCCACTCTTCGAGCacgccctggcgggtgggc                                                                                                                              <  1:285891‑M1/56‑19 (MQ=255)                                                                                                   ccagccagCCCTGCGGGGTTTGCTGCCACTCTTCGAGCacgccctggcgggtgggc                                                                                                                              >  2:285891‑M1/1‑38 (MQ=255)                                                                                                   ccagccagCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTgg                               >  2:230015/1‑150 (MQ=255)                                                                                                       ccagccCTGCGGGGTTTGCTGCCCCTCGTCGACCCCACCCTCCAGGGCGTGCTCGCCCAGGATCTACCGTC‑TTTCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGcc                           <  1:656792/150‑1 (MQ=255)                                                                                                          gccCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCa                        >  2:428146/1‑150 (MQ=255)                                                                                                            ccTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGCACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAAc                      <  2:335092/150‑1 (MQ=255)                                                                                                            ccTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACCAGTGcccaggc                      <  1:113660/150‑5 (MQ=255)                                                                                                                          tgcCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAACCGAACCACCATTcc        >  1:765728/1‑150 (MQ=255)                                                                                                                            ccACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCGCGTAAGCCATGATGTTGGCAGTGGTGCCCCAACCGAACCACCATTCCAg      >  2:416344/1‑150 (MQ=255)                                                                                                                              aCTCTTCGAGCCCACCCGCCAGGGCGTgctcgaagagtggcagcaaaccccgcagggctggctgggcctgctgattttgctcgaccagctgccacgcatgatctaccgc                                              >  2:292658‑M2/1‑27 (MQ=255)                                                                                                                              aCTCTTCGAGCCCACCCGCCAGGGCGTgctcgaagagtggcagcaaaccccgcagggctggctgggcctgctgattttgctcgaccagctgccacgcatgatctaccgc                                              <  1:292658‑M2/109‑83 (MQ=255)                                                                                                                              aCTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAACCGAACCACCATTCCAGCa    >  1:288834/1‑150 (MQ=255)                                                                                                                                tctTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAACCGAACCACCATTCCAGCAAc  >  2:506670/1‑150 (MQ=255)                                                                                                                                       gCCCACCCGCCAGGGCGTgctcgaagagtggcagcaaaccccgcagggctggctgg                                                                                          >  2:285891‑M2/1‑18 (MQ=255)                                                                                                                                       gCCCACCCGCCAGGGCGTgctcgaagagtggcagcaaaccccgcagggctggctgg                                                                                          <  1:285891‑M2/56‑39 (MQ=255)                                                                                                                                        cccACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGc                                                                 >  2:716915/1‑79 (MQ=255)                                                                                                                                        cccACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGc                                                                 <  1:716915/79‑1 (MQ=255)                                                                                                                                        |                                                                                                                                               CTGCATGGCGACCACCTGGGCACGCCGGTCGCCCTCGAAGGCGCGCGGCGTGTCGCGGTAGATCATGCGTGGCAGCTGGTCGAGCAAAATCAGCAGGCCCAGCCAGCCCTGCGGGGTTTGCTGCCACTCTTCGAGCCCACCCGCCAGGGCGTGCTCGACCAGG‑TCGCCAAACAGCGCATGGGCGTCGGCATCGTAATGCTTGCCGAACCACAGCGTGCTCTTCTCGTCAGCCACGGCCTGGGCACTGGTGCCCCAACCGAACCACCATTCCAGCAAC  >  NC_002947/5741913‑5742189

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.