New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3179966 =	36 (0.830)	5 (0.120)	5/244	NT	12.7%	coding (751/1953 nt)	PP_2790	sigma‑54 dependent sensory box protein
	?	NC_002947	3180013 =	34 (0.820)					coding (704/1953 nt)	PP_2790	sigma‑54 dependent sensory box protein

GCTCACCACGGCGTGCGAGCCGAGCCGCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTTCCTCCAGCG  >  NC_002947/3179868‑3180160                                                                                                                                                  |                                                                                                                                                    aaacggcggcatctgaatgccgtgctgcggcatatccccgccggcgtagcagcggtcgacaaccaaggcgtggtgcagtcgctcaaccctgcccttgcGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCCGCAGCTGCGCAAg                                                                                                                                                 >  2:856351‑M1/99‑150 (MQ=255)   tCACCACGGCGTGCGAGCCGAGCCGCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAggg                                                                                                                                               >  1:189852/1‑150 (MQ=255)             gTGCGAGCCGAGCCGCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAg                                                                                                                                     <  1:428601/150‑1 (MQ=255)                        gccgCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGcacca                                                                                                                          >  2:804263/1‑150 (MQ=255)                         ccgCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGcaccac                                                                                                                         >  1:245091/1‑150 (MQ=255)                              tCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCCACTGCACCACGCCtt                                                                                                                    <  1:574607/150‑1 (MQ=255)                                     gTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTc                                                                                                             <  2:650294/150‑1 (MQ=255)                                           ttcACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCgc                                                                                                       >  1:1090260/1‑150 (MQ=255)                                                   tGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAgg                                                                                                                                                >  2:683399/1‑101 (MQ=255)                                                   tGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAgg                                                                                                                                                <  1:683399/101‑1 (MQ=255)                                                       gtcgacaaccaaggcgtggtgcagtcgctcaaccctgcccttgcGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTgcgc                                                                                                                                                    >  2:833822‑M1/45‑93 (MQ=255)                                                       gtcgacaaccaaggcgtggtgcagtcgctcaaccctgcccttgcGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTgcgc                                                                                                                                                    <  1:833822‑M1/49‑1 (MQ=255)                                                          cTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCggg                                                                                        >  1:112823/1‑150 (MQ=255)                                                                cgcCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATg                                                                                  <  2:189852/150‑1 (MQ=255)                                                                  ccTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGcc                                                                                >  1:391986/1‑150 (MQ=255)                                                                  ccTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAAAAGTTGCGCAAGGGCAGGGCTGAACGCGCATACCCCGGCTGGGTTTTCGGCCGCTGCTACGCCGGCGGGGATATGcc                                                                                >  1:805463/1‑150 (MQ=255)                                                                     gctgcAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCgca                                                                             >  2:143917/1‑150 (MQ=255)                                                                            gTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGc                                                                      <  1:41324/150‑1 (MQ=255)                                                                            gTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCCGGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGc                                                                      >  2:125174/1‑150 (MQ=255)                                                                            gTCCAGTTACGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTAGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGc                                                                      >  2:379337/1‑150 (MQ=255)                                                                               cAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCAtt                                                                   >  2:754263/1‑150 (MQ=255)                                                                                     cGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATg                                                             >  1:1069776/1‑150 (MQ=255)                                                                                      gggCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATgc                                                            >  1:44025/1‑150 (MQ=255)                                                                                              cttgcgcagctgcgggacctgccggttagcgcagcgctgggccggccgctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGttt                                                    >  2:856351‑M2/53‑150 (MQ=255)                                                                                              ctgctgCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAgg                                                                                                                                           >  1:512512/1‑63 (MQ=255)                                                                                              ctgctgCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAgg                                                                                                                                           <  2:512512/63‑1 (MQ=255)                                                                                              ctgctgCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCACCGGCTACGGATGGGCAGGGTTGAGGGACTGCACCGCGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGttt                                                    >  2:680556/1‑150 (MQ=255)                                                                                               tgctgcAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTg                                                   >  2:814166/1‑150 (MQ=255)                                                                                                gctgcAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTgg                                                  <  1:544478/150‑1 (MQ=255)                                                                                                 gcgcagctgctggacctgccggttagcgcagcgctgggccggccgctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGAc                                                                                                          <  1:833822‑M2/44‑1 (MQ=255)                                                                                                 gcgcagctgctggacctgccggttagcgcagcgctgggccggccgctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGAc                                                                                                          >  2:833822‑M2/50‑93 (MQ=255)                                                                                                         gctggacctgccggttagcgcagcgctgggccggccgctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGa                                         >  1:240979‑M2/42‑150 (MQ=255)                                                                                                         gccggccCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTgg                                                                                                                  <  1:39569/77‑1 (MQ=255)                                                                                                         gccggccCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTgg                                                                                                                  >  2:39569/1‑77 (MQ=255)                                                                                                                cAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTg                                  >  2:428405/1‑150 (MQ=255)                                                                                                                           tAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCa                                                                 <  2:977130/108‑1 (MQ=255)                                                                                                                           tAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCa                                                                 >  1:977130/1‑108 (MQ=255)                                                                                                                            gcagcgctgggccggccgctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAAt                      <  1:856351‑M2/128‑1 (MQ=255)                                                                                                                            aaCCGGCAGGTCCAGCAGCTGCGCAAGGGCATGGTTGAGCGACTGCACCATGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGTCGTTTGACGATCTCGACGCGTTGAGTGTCGAGAAt                      <  2:581894/150‑1 (MQ=255)                                                                                                                                     gTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGc             >  1:126537/1‑150 (MQ=255)                                                                                                                                     gTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGc             >  2:590748/1‑150 (MQ=255)                                                                                                                                      tCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCAAGTCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTTTGGAGTATGCCCAGGGCt            >  1:684231/1‑150 (MQ=255)                                                                                                                                        cagcagCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTtc          <  1:143917/150‑1 (MQ=255)                                                                                                                                        cagcagCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTtc          >  2:983077/1‑150 (MQ=255)                                                                                                                                          gcagcTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCgcag                                                                            <  1:287591/82‑1 (MQ=255)                                                                                                                                          gcagcTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCgcag                                                                            >  2:287591/1‑82 (MQ=255)                                                                                                                                              ctgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCAATTTTCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTTCCTCCAg    >  2:759031‑M2/5‑150 (MQ=255)                                                                                                                                               tgcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTTCCTCCAgc   <  2:245091‑M2/147‑1 (MQ=255)                                                                                                                                                gcGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTTCCTCCAgcg  <  2:845910‑M2/148‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                    GCTCACCACGGCGTGCGAGCCGAGCCGCATCACGCGGTTTTCTTCACCCGTGCCTTCCTGCAGCGCCTGCTGCAGGTCCAGTTCCGGGCACAGCTGCTGCAGCGGCCGGCCCAGCGCTGCGCTAACCGGCAGGTCCAGCAGCTGCGCAAGGGCAGGGTTGAGCGACTGCACCACGCCTTGGTTGTCGACCGCTGCTACGCCGGCGGGGATATGCCGCAGCACGGCATTCAGATGCCGCCGTTTGGCGATCTCGACGCGTTGAGTGTCGAGAATGCCCAGGGCTTCCTCCAGCG  >  NC_002947/3179868‑3180160

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.