New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3951114 =	31 (1.050)	4 (0.180)	3/190	NT	17.4%	intergenic (‑34/+161)	PP_3486/PP_3487	cytochrome c/hypothetical protein
	?	NC_002947	3951230 =	14 (0.610)					intergenic (‑150/+45)	PP_3486/PP_3487	cytochrome c/hypothetical protein

GACCCGGGCTTGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGGATGCCACAGAGGCCAATTCCCCAGGC  >  NC_002947/3950967‑3951262                                                                                                                                                    |                                                                                                                                                     gACCCGGGCTTGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCcgt                                                                                                                                                    >  1:274017/1‑150 (MQ=255)   tgttgcatgtaaacgctggagcaagattcgcgctgttgctccgccagccgctattgctcagctcatgcagctgttgacccagcccctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTgg                                                                                                                                                  >  2:265373‑M1/146‑150 (MQ=255)   tgttgcaggtaaacggtggagcaagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcgtgaggaattggcctctgtggcatccgctttTGTgg                                                                                                                                                  >  2:549208‑M1/146‑150 (MQ=255)   cccGGGCTTGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTgg                                                                                                                                                  >  2:724709/1‑150 (MQ=255)   cccGGGCTTGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTgg                                                                                                                                                  <  2:274017/150‑1 (MQ=255)          ttGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGc                                                                                                                                           >  2:439318/1‑150 (MQ=255)            gCAATTGAGCGAAGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCt                                                                                                                                         >  2:196277/1‑150 (MQ=255)             cAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCtt                                                                                                                                        <  1:496878/150‑1 (MQ=255)                 gctggagcaagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgcttttg                                                                                                                                                     >  1:509366‑M1/132‑133 (MQ=255)                 gctggagcaagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctgttg                                                                                                                                                     <  2:509366‑M1/2‑1 (MQ=255)                    ggagcaagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTcgc                                                                                                                                 >  1:286812‑M1/129‑150 (MQ=255)                    ggagcaagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTcgc                                                                                                                                 >  2:628621‑M1/129‑150 (MQ=255)                         aagattcgcccggatgcaccgccagcggcgattgcccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTCGCGAAAg                                                                                                                            >  2:292203‑M1/124‑150 (MQ=255)                              tGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTg                                                                                                                       <  1:217804/150‑1 (MQ=255)                                     gCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCgcagca                                                                                                                >  2:392343/1‑150 (MQ=255)                                           gcgGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCg                                                                                                          >  2:202243/1‑150 (MQ=255)                                                 aaGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGt                                                                                                     <  1:32667/149‑1 (MQ=255)                                                 aaGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGt                                                                                                     >  2:32667/1‑149 (MQ=255)                                                    gCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCa                                                                                                 >  2:16690/1‑150 (MQ=255)                                                            ccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAgc                                                                                         <  1:720541‑M1/62‑1 (MQ=255)                                                            ccagcgcatgcagctgttgacccagccgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAgc                                                                                         <  2:281382‑M1/62‑1 (MQ=255)                                                               cTTGTTCATGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCa                                                                                      >  2:307321/1‑150 (MQ=255)                                                                   ttCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGc                                                                                                                                      <  1:600682/98‑1 (MQ=255)                                                                   ttCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGc                                                                                                                                      >  2:600682/1‑98 (MQ=255)                                                                          tcggtcAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGCGa                                                                           <  1:798080/150‑1 (MQ=255)                                                                          tcggtcAGGTCCAGGGCCAGGGCTGAGATCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGa                                                                           <  1:202243/150‑1 (MQ=255)                                                                              tcAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAgcgc                                                                       >  1:785689/1‑150 (MQ=255)                                                                                   tCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTgc                                                                    <  2:81211/148‑1 (MQ=255)                                                                                   tCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTgc                                                                    >  1:81211/1‑148 (MQ=255)                                                                                      cgctggccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCt                                                               >  1:281382‑M1/63‑150 (MQ=255)                                                                                       gtgccagggcTGGTTTTGTATTTTCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGGCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCCCAGAAAGAGGGGAGCGCTGCGCGCTc                                                              <  2:567000/148‑1 (MQ=38)                                                                                       gggccagggcTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTc                                                              <  1:107373/150‑1 (MQ=255)                                                                                            ccggtcggtgagtatcatgggccgcctggggaattggcctctgtggcatccgctttTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTc                                                         >  2:720541‑M1/57‑150 (MQ=255)                                                                                              ggcTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTcgc                                                       <  2:785689/150‑1 (MQ=255)                                                                                                            ttGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCAGCGCGCTCCTTTCGCGACGCAAGGCCGCt                                         >  1:721848/1‑150 (MQ=255)                                                                                                                catgccaAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCca                                     <  1:724709/150‑1 (MQ=255)                                                                                                                       aGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGc                              >  2:264161/1‑150 (MQ=255)                                                                                                                        gCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCg                             <  1:741804/150‑1 (MQ=255)                                                                                                                         cACGCAGGTAAGCCATCTGACAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCCGCAGCCCCGGCAGTGGCAGCTCAAGCGTAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCgg                            <  1:439318/150‑1 (MQ=38)                                                                                                                             cAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGGATGc                        <  1:16690/150‑1 (MQ=255)                                                                                                                             cAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACAAAAGGCCGCTCCCACAAAAGCGGATGc                        <  1:307321/150‑1 (MQ=255)                                                                                                                                    gCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAgc                                                                                         <  2:385246/78‑1 (MQ=255)                                                                                                                                    gCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAgc                                                                                         >  1:385246/1‑78 (MQ=255)                                                                                                                                      cATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTc                                                         >  2:30301/1‑108 (MQ=255)                                                                                                                                      cATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTc                                                         <  1:30301/108‑1 (MQ=255)                                                                                                                                                   cTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGGATGCCACAGAGGCCAATTCCCCAggc  >  1:433037/1‑150 (MQ=255)                                                                                                                                                    |                                                                                                                                                     GACCCGGGCTTGCAATTGAGCGTCGCTACTGGAGACGCCCTCGCGGTAAAGGCGTTTGCCTGCTTGTTCGTGGTCGGTCAGGTCCAGGGCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACGCAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGGATGCCACAGAGGCCAATTCCCCAGGC  >  NC_002947/3950967‑3951262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.