New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2099960 =	25 (0.420)	5 (0.100)	5/216	NT	17.7%	intergenic (‑71/‑134)	PP_1875/PP_1876	two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein
	?	NC_002947	2100055 =	26 (0.540)					intergenic (‑166/‑39)	PP_1875/PP_1876	two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein

TGTCTGTTCATTTCAGTTGATCGCCAAGCGGGGGCCGCTTGGCGCCCCTCCGCGGGC‑TTGCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTGGGGC  >  NC_002947/2099919‑2100192                                                                                                                                              |                                                                                                                                            tgtctgtTCATTTCAGTTGATCGCCAAGCGGGGGCCGCTTGGCGCCCCTCCGCGGGCGTGGCCCGTGCCC‑CCGGGACCGGGTAGCCCCCGGCGGGCCGCCCGCCCGGGGGGGGGGGGCCC‑GCCCGCGGCGGGG‑‑GGCGGCCCCGGccccc                                                                                                                                  >  4:40160/1‑149 (MQ=255)          aTTTCAGTTGATCGCCAAGCGGGGGCCGCTTGGCGCCCCTCCGCGGGC‑TTGCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACt                                                                                                                          >  5:379647/1‑147 (MQ=255)                         cAAGCGGGGGCCGCTTGGCGCCCCTCCGCGGGC‑TTTCCCCTTACCACACGTAAAGCATATCCCCACGCAGAACCCAACCCCAGTGGGAGCGGGCAA‑GCCCGCGGACGGG‑‑CGC‑GCAGCGGCCCCCCAAAAACAGAGAATTTTATGattac                                                                                                         >  6:347402/1‑145 (MQ=255)                                            GCCCCTCCGCGGGC‑TGGCCCGTTCCCACCGGTACAGCTTCGCCCCCGGCTGAACGCAAGCCCGGTGGTAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGAt                                                                                      >  6:379647‑M1/1‑149 (MQ=255)                                               ccgccGCGGGA‑TGGCCCGTCCCCACCGGAACTGCTTACCCCCCGGCTTAAC‑CAACCCCGGGGGGTCGGGGCAACGCCCGCGGAGGGGCTCGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATc                                                                                     <  1:106281/146‑1 (MQ=255)                                                cTCCGCGGGC‑ATGCCCCTTACCACAGGTACAGCATAGCCCCAGGCTGAACGCAAGCCCAGTGGGAGCGGGCAA‑GCCCGCCGAGGGG‑‑CCC‑GCCGCGCGCCCCAAAAAACAGAGATTGTTAGGAGTCGGGATGGACGCTCGCTTGaaggct                                                                                  >  4:350135/1‑144 (MQ=255)                                                CTCCGCGGGC‑TTGCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTAGCGTGATCgcg                                                                                  <  4:258900‑M1/149‑2 (MQ=255)                                                           TTGCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GAcc                                                                      <  8:211730‑M1/149‑1 (MQ=255)                                                             GCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTa                                                                                                                <  7:345085‑M1/107‑1 (MQ=255)                                                             GCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTa                                                                                                                >  8:345085‑M1/1‑107 (MQ=255)                                                             GCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCt                                                                             >  7:349346‑M1/1‑142 (MQ=255)                                                             GCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCt                                                                             <  8:349346‑M1/142‑1 (MQ=255)                                                                 GTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGcc                                                                 <  7:39260‑M1/148‑1 (MQ=255)                                                                     ccACAGGTACAGCTTAGCGCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCGCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCtttt                                                                               <  3:65528/132‑1 (MQ=255)                                                                     ccACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATc                                                            >  4:184794/1‑149 (MQ=255)                                                                     ccACAGGTACAGCTTAGCCCAAGGCTGAACGCAAGCCCTGTGGGAGCGGGAAA‑GCCCGCCGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGACGTCATGGACGCTCGCATCATCGCattt                                                                               >  4:65528/1‑132 (MQ=255)                                                                      cactgttACCGCTTCGCCCCCGGGTCACCCCAACCCCTGTGGTCGGGGGAAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCg                                                           <  5:270118/143‑1 (MQ=255)                                                                      cacaGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCg                                                           >  8:205812/1‑149 (MQ=255)                                                                         aGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTa                                                        <  3:184794/149‑1 (MQ=255)                                                                          cacagggcttgcgttcagcctggggctaagctgtacctgtgggaacgggcaagcccgcggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTATG‑‑GACCGCGCCGAATCg                                                           >  2:334780‑M2/69‑149 (MQ=255)                                                                             aCAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTgg                                                    >  2:29555/1‑149 (MQ=255)                                                                               ggcttgcgttcagcctggggctaagctgtacctgtgggaacgggcaagcccgcggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCgcgc                                                                  <  4:150617‑M2/74‑1 (MQ=255)                                                                               ggcttgcgttcagcctggggctaagctgtacctgtgggaacgggcaagcccgcggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCgcgc                                                                  >  3:150617‑M2/64‑137 (MQ=255)                                                                                    aGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGgcgcgc                                               <  8:39260/147‑1 (MQ=255)                                                                                     gCCCCAGGCTGAACGCAACCCCTGTGGTTGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCt                                             <  5:347402/148‑1 (MQ=255)                                                                                      ccccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCtt                                            >  8:277714/1‑148 (MQ=255)                                                                                      ccccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCtt                                            >  1:260778/1‑148 (MQ=255)                                                                                      ccccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCtt                                            >  4:135847/1‑148 (MQ=255)                                                                                       cccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTga                                                                                                                        <  5:108716/73‑1 (MQ=255)                                                                                       cccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTga                                                                                                                        >  6:108716/1‑73 (MQ=255)                                                                                       cccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATc                                                                                     >  1:367004/1‑108 (MQ=255)                                                                                       cccAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATc                                                                                     <  2:367004/108‑1 (MQ=255)                                                                                             cTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCt                                    <  7:211730/149‑1 (MQ=255)                                                                                              tGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCg                                                           <  4:161903/125‑1 (MQ=255)                                                                                              tGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCg                                                           >  3:161903/1‑125 (MQ=255)                                                                                                    cAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCg                             >  1:18096/1‑149 (MQ=255)                                                                                                     aaGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCgg                            >  2:110252/1‑149 (MQ=255)                                                                                                                gtgggaacgggcaagcccgcggaggggcgcCAAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGc                               >  6:136678‑M2/31‑139 (MQ=255)                                                                                                                gtgggaacgggcaagcccgcggaggggcgcCAAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGc                               <  5:136678‑M2/109‑1 (MQ=255)                                                                                                                         ggcaagcccgcggaggggcgc‑CAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATc           >  4:164595‑M2/22‑149 (MQ=255)                                                                                                                         aatcccGCGGTGGGG‑‑CGC‑GCATCGGGCCCCAAAAAACTTTTATTGTTTTTTTGCGTCATTGACGCTCTCTTTTTCGCTTTTCTGTCAACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATc           <  1:110252/146‑1 (MQ=255)                                                                                                                           caagcccgcggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGgc                                                   >  8:20858‑M2/20‑108 (MQ=255)                                                                                                                                ccgcggaggggcgc‑CAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTggg    <  3:164595‑M2/135‑1 (MQ=255)                                                                                                                                 cgcggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTggg    >  5:242926‑M2/14‑149 (MQ=255)                                                                                                                                   cggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTGGGGc  <  3:135847‑M2/138‑1 (MQ=255)                                                                                                                                   cggaggggcgcGCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTGGGGc  <  7:277714‑M2/138‑1 (MQ=255)                                                                                                                                              gcAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGcaca             >  2:202799/1‑127 (MQ=255)                                                                                                                                              gcAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGcaca             <  1:202799/127‑1 (MQ=255)                                                                                                                                              |                                                                                                                                            TGTCTGTTCATTTCAGTTGATCGCCAAGCGGGGGCCGCTTGGCGCCCCTCCGCGGGC‑TTGCCCGTTCCCACAGGTACAGCTTAGCCCCAGGCTGAACGCAAGCCCTGTGGGAGCGGGCAA‑GCCCGCGGAGGGG‑‑CGC‑GCAGCGGCCCCCAAAAAACTGAGATTGTTAGGAGTCGTCATGGACGCTCGCTTGATCGCTTTTCTG‑‑GACCGCGCCGAATCGGTACTGGCGCGCCTTGAACCCCTGTTGCCGGCACAACGCCCGCACATCGACTGGGGC  >  NC_002947/2099919‑2100192

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ 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.