New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4536203 =	NA (NA)	5 (0.080)	5/258	NT	12.5%	intergenic (+730/‑85)	PP_4022/PP_4024	hypothetical protein/transposase
	?	NC_002947	4944914 =	35 (0.590)					intergenic (+274/+524)	PP_5673/flhB	D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein

CAGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCACCGC  >  NC_002947/4944767‑4945060                                                                                                                                                    |                                                                                                                                                   cAGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACTATCGACAGGGCGATGTTGAAGGTg                                                                                                                                                    >  8:346669/1‑148 (MQ=255) cAGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTg                                                                                                                                                    >  6:358973/1‑148 (MQ=255) cAGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTg                                                                                                                                                    >  7:232377/1‑148 (MQ=255)  aGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTgaa                                                                                                                                                  <  5:358973/149‑1 (MQ=255)  aGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTgaa                                                                                                                                                  <  3:123609/149‑1 (MQ=255)   gAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTgaag                                                                                                                                                 <  7:280496/149‑1 (MQ=255)        ggTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAacac                                                                                                                                            <  7:225443/149‑1 (MQ=255)                aaCTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCa                                                                                                                                    <  1:124535/149‑1 (MQ=255)                   tttCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGCCCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAgg                                                                                                                                  >  5:80242/1‑148 (MQ=255)                      cAACTGTCACGCCGCAATTCGGGCGGAATCGGTTAGCAGGAGTGGCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGAGCGACAGGGCGATGTTGTCGGTGAAGAACACGTCGTGCAGGAAc                                                                                                                               <  6:228342/148‑1 (MQ=18)                       aaCTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAAcgg                                                                                                                             >  8:98971/1‑149 (MQ=255)                         cTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAAcggcg                                                                                                                           <  8:117956/149‑1 (MQ=255)                            tagactttttcgactttgctgtcggggcgcatcatggcgggctggctccagaaagaaatcgggagcacagcatcgggaatcaggtggacggttggaatgtggggatgatggatcccttacGAAGAACACGTCGAGCAGGAACGGCGGTa                                                                                                                        >  4:325391‑M2/121‑149 (MQ=255)                            tCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTa                                                                                                                        <  7:346669/149‑1 (MQ=255)                            tCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTa                                                                                                                        >  6:161967/1‑149 (MQ=255)                              aCGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGCACGGCGGTATc                                                                                                                      >  3:38752/1‑149 (MQ=255)                              aCGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTAt                                                                                                                       <  3:69438/148‑1 (MQ=255)                                    cAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCaa                                                                                                                 >  1:195200/1‑148 (MQ=255)                                        actttgctgtcggggcgcatcatggcgggctggctccagaaagaaatcgggagcacagcatcgggaatcaggtggacggttggaatgtggggatgatggatcccttacGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAAcatca                                                                                                            <  3:325391‑M2/41‑1 (MQ=255)                                          tttgctgtcggggcgcatcatggcgggctggatacagaatgaaatcgggagcacagcttcgggaatcaggtggacggttggaatgtggggatgatggatcccttacGAAGAACAGGTCGAGCAGGAACGGCGGTTTCGGCTAcatcat                                                                                                           >  5:97556‑M2/107‑148 (MQ=255)                                            agctgtcggggcgcatcatggcttgctggctccagaaagaaatctggagcacatcatcgggaatcaggtggacttttggaatgtgtggatgatggatcccttacGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAAcatcatc                                                                                                          <  6:97556‑M2/43‑1 (MQ=255)                                                 tcttggcgcatcattgcgggctgtctccagaaagaaatcgtgagcacagcatagtgaatcagttggacggttggaatgtggggatgatggatcccttacGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGcc                                                                                                    <  8:88566‑M2/49‑1 (MQ=255)                                                                                               aaGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAg                                                     >  7:281517/1‑149 (MQ=37)                                                                                                  gCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCgg                                                                             <  5:270740/122‑1 (MQ=35)                                                                                                  gCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCgg                                                                             >  6:270740/1‑122 (MQ=35)                                                                                                  gCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGccc                                                  >  3:258683/1‑149 (MQ=37)                                                                                                    gTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCgg                                                >  6:307565/1‑149 (MQ=37)                                                                                                         cacaGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGGGCTCGGCCggg                                           <  7:98971/149‑1 (MQ=255)                                                                                                         cacaGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAgg                                           <  5:161967/149‑1 (MQ=37)                                                                                                           caGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGgtt                                         >  8:239385/1‑149 (MQ=37)                                                                                                             gACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGgttgt                                       <  2:195200/149‑1 (MQ=37)                                                                                                                 agcagcACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCg                                   >  1:370546/1‑149 (MQ=37)                                                                                                                 agcagcACCACGATCGACAGGGAGATGTTGAAGGTGAAGAAAACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACCTCACCAGCAGTAAAAGCGGCCCACCCCGGTTGCCCCGGCCGCGCCCGGCCCGgtagtatcg                                   >  7:236995/1‑145 (MQ=11)                                                                                                                  gcagcaCCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCgg                                  >  7:29141/1‑149 (MQ=37)                                                                                                                         cacGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGc                           <  5:161920/149‑1 (MQ=37)                                                                                                                         cacGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGc                           >  6:161920/1‑149 (MQ=37)                                                                                                                            gATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGa                        <  7:239385/149‑1 (MQ=37)                                                                                                                             aTCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGAt                       <  4:258683/149‑1 (MQ=37)                                                                                                                             aTCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGAt                       <  4:38752/149‑1 (MQ=37)                                                                                                                                 aCAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAAc                   >  8:333960/1‑149 (MQ=37)                                                                                                                                  cAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACt                  <  5:307565/149‑1 (MQ=37)                                                                                                                                      gCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGt              <  8:29141/149‑1 (MQ=37)                                                                                                                                       cGATGGTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTg             <  8:232377/149‑1 (MQ=37)                                                                                                                                          tGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGa          >  1:99618/1‑149 (MQ=37)                                                                                                                                           gTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGc                           >  6:96653/1‑131 (MQ=37)                                                                                                                                           gTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGc                           <  5:96653/131‑1 (MQ=37)                                                                                                                                               aaGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCAc     <  5:357462/149‑1 (MQ=37)                                                                                                                                               aaGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTAGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCAc     <  5:362666/149‑1 (MQ=37)                                                                                                                                                  gTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCACcgc  >  8:112591/1‑149 (MQ=34)                                                                                                                                                  gTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCACcgc  <  2:99618/149‑1 (MQ=34)                                                                                                                                                    gaagaaCACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCACcgc  >  1:200271/1‑147 (MQ=34)                                                                                                                                                    |                                                                                                                                                   CAGAAACGGTCAAGAAACTTTCAACTGTCACGCCGCAAATCCGGCGGAATCGGAAAGCAGGATGGTCGGGAACGCGGCAAAGTCGAGCGGGCGCAAGGCGTATACACAGACCAGCAGCACCACGATCGACAGGGCGATGTTGAAGGTGAAGAACACGTCGAGCAGGAACGGCGGTATCGGCAACATCATCATTGCCAACATCACCAGCAGTAACAGCGGCACACCCAGGTTGCCCCGGCCGAGCCCGGCCAGGTTGTTGCGGGCGTTGCTGATTAACTGAGTGCGATCCACCGC  >  NC_002947/4944767‑4945060

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.