New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	359677 =	37 (1.590)	7 (0.320)	7/240	NT	17.5%	intergenic (+34/+86)	gbdR/PP_0299	AraC family transcriptional regulator/hypothetical protein
	?	NC_002947	359721 =	31 (1.410)					intergenic (+78/+42)	gbdR/PP_0299	AraC family transcriptional regulator/hypothetical protein

GCAGGTGGCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGCGTAC  >  NC_002947/359529‑359825                                                                                                                                                      |                                                                                                                                                       tggtggagcagatgtacaccggcagtgcgacgatcctgccggcagtacgccaggccatcgacaagcaactgttgccagcgttggcgcagttcaacaaacgcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccc                                                                                                                                                        <  1:103307‑M1/1‑1 (MQ=255)     gTGGCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCcaca                                                                                                                                                   <  2:533961/150‑1 (MQ=255)      tGGCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAg                                                                                                                                                  >  1:312809/1‑150 (MQ=255)        gCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGt                                                                                                                                                >  1:605399/1‑150 (MQ=255)        gCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCACTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCACCGGCCCCTTCGCGGAACAAGCCCGCCCCCACAga                                                                                                                                                 >  1:274140/1‑149 (MQ=38)                  cGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGa                                                                                                                                      <  2:312809/150‑1 (MQ=255)                        cGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGa                                                                                                                                <  2:417451/150‑1 (MQ=255)                        cGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGa                                                                                                                                <  1:232898/150‑1 (MQ=255)                                aTGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGGCACCCGCTGAGCTTGAGC‑CAGCgg                                                                                                                       >  1:283706/1‑150 (MQ=255)                                  tcctgccggcagtacgccaggccatcgacaagcaactgttgccagcgttggcgcagttcaacaaacgcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccCCCACAGATCACC‑GCTGAGCTTGAGC‑CAGCGG‑Tg                                                                                                                    >  1:307429‑M1/117‑150 (MQ=255)                                  gACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGGGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACCCCCGCTCCCCCAGGTCACCCGCTGAGCTTGAGC‑CAgggctg                                                                                                                     >  1:161881/1‑145 (MQ=255)                                   aCCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGa                                                                                                                   <  2:605399/150‑1 (MQ=255)                                     ccTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATc                                                                                                                 >  2:478101/1‑150 (MQ=255)                                                      ggCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑GAGCGG‑TGATCTGTGGGGGCGGGCTTGt                                                                                                >  1:544084/1‑150 (MQ=255)                                                        ccGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTc                                                                                              <  2:378372/150‑1 (MQ=255)                                                         catcgacaagcaactgttgccagcgttggcgcagttcaacaaacgcgcgtaatccatttacccaggaccggcctcttcgcgggcacgcccgctCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTc                                                                                              <  1:114154‑M1/57‑1 (MQ=255)                                                               cggcCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGTGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCTGGCTTGTTCCGCGAAg                                                                                       <  1:74396/150‑1 (MQ=255)                                                               cggcCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAg                                                                                       <  2:18461/150‑1 (MQ=255)                                                                   ccTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGc                                                                                   <  1:271511/150‑1 (MQ=255)                                                                      ctgttgccagcgttggcgcagttcaacaaacgcgcgtaatccatttacccaggaccggcctcttcgcgggcacgcccgctCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCg                                                                                 >  2:114154‑M1/81‑150 (MQ=255)                                                                         ccAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTcc                                                                             >  1:41204/1‑150 (MQ=255)                                                                          cAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCt                                                                            <  1:489280/150‑1 (MQ=255)                                                                                  cAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAAt                                                                    <  2:41204/150‑1 (MQ=255)                                                                                     tGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGa                                                                 <  2:136013/150‑1 (MQ=255)                                                                                      gAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑GGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGAt                                                                <  2:241538/150‑1 (MQ=255)                                                                                         tCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGa                                                                                                                                      <  1:601173/79‑1 (MQ=255)                                                                                         tCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGa                                                                                                                                      >  2:601173/1‑79 (MQ=255)                                                                                          ttcaacaaacgcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCtgtg                                                                                                             >  2:84451‑M1/61‑102 (MQ=255)                                                                                          ttcaacaaacgcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCtgtg                                                                                                             <  1:84451‑M1/42‑1 (MQ=255)                                                                                                   ccAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTttgt                                                   >  2:103307/1‑150 (MQ=255)                                                                                                    gcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCtgtg                                                                                                             <  1:105028‑M1/42‑1 (MQ=255)                                                                                                    gcgcgtaatccatttacccaggaccggccccttcgcggaacaagcccgccCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCtgtg                                                                                                             >  2:105028‑M1/51‑92 (MQ=255)                                                                                                    cAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTttgtt                                                  >  1:218814/1‑150 (MQ=255)                                                                                                    cAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTttgtt                                                  >  1:416493/1‑150 (MQ=255)                                                                                                          aaGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAAt                                                                    >  2:273849/1‑126 (MQ=255)                                                                                                          aaGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAAt                                                                    <  1:273849/126‑1 (MQ=255)                                                                                                          aaGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTg                                            >  1:458589/1‑150 (MQ=255)                                                                                                               tctGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGCACTGCGCCa                                       >  1:391034/1‑150 (MQ=255)                                                                                                               tctGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCa                                       >  1:362105/1‑150 (MQ=255)                                                                                                                             ggCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGt                         >  2:511047/1‑150 (MQ=255)                                                                                                                                ctctTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGc                      <  2:218814/150‑1 (MQ=255)                                                                                                                                             aCGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGGACTGCGCCAACGCTgg                                >  1:553000/1‑128 (MQ=255)                                                                                                                                             aCGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGGACTGCGCCAACGCTgg                                <  2:553000/128‑1 (MQ=255)                                                                                                                                             aCGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGcc          >  2:531356/1‑150 (MQ=255)                                                                                                                                              cGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCt         >  1:518978/1‑150 (MQ=255)                                                                                                                                                 ccgccCCCACAGATCACC‑GCTG‑GCTCAAGCTCAGCGGGTGACCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGc      <  1:446825‑M1/145‑1 (MQ=255)                                                                                                                                                 ccGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGc      <  2:518978/150‑1 (MQ=255)                                                                                                                                                    cgCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGCGTa   >  2:327866‑M1/3‑150 (MQ=255)                                                                                                                                                     tCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGCGTAc  >  1:45095/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                                       GCAGGTGGCCATGATGCCGATTCCGCAGGCCATGACCCTGTCGCCGCACAGCGGGCCGATGGCGGCCCTGAGCCAGGCGCGCAATGAGTCGACATTTGCCAGTGTAAGGCTCTGACACCGCGCCGGCCTCTTCGCGG‑GCACGCCCGCTCCCACAGGTCACCCGCTGAGCTTGAGC‑CAGCGG‑TGATCTGTGGGGGCGGGCTTGTTCCGCGAAGGGGCCGGTCCTGGGTAAATGGATTACGCGCGTTTGTTGAACTGCGCCAACGCTGGCAACAGTTGCTTGTCGATGGCCTGGCGTAC  >  NC_002947/359529‑359825

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.