New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4960363 =	23 (0.730)	3 (0.100)	3/240	NT	11.9%	coding (153/1779 nt)	fliF	flagellar M‑ring protein
	?	NC_002947	4960396 =	22 (0.720)					coding (120/1779 nt)	fliF	flagellar M‑ring protein

AGCAGGGCCCCCGAGTTGGGCTCCACGTTATAGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGCGTTTTCGAC  >  NC_002947/4960214‑4960500                                                                                                                                                      |                                                                                                                                          agatgccggtttgaggacggatgtaacccatggctgaagcagtcgtcgaaaacgcccccgccaaagctggctcgccagcggccaagccgccgctgtttggcatggcgtttctggaaaacatctcgcagatgcccatgctgcgccagatcg                                                                                                                                           >  2:810642‑M1/150‑150 (MQ=255)          cccGAGTTGGGCTCCACGTTATAGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTg                                                                                                                                  <  1:474914/150‑1 (MQ=255)                  gggCTCCACGTTATAGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAg                                                                                                                          >  1:194165/1‑150 (MQ=255)                           gTTATAGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCag                                                                                                                 >  1:750461/1‑150 (MQ=255)                             tataGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCagga                                                                                                               <  1:478041/150‑1 (MQ=255)                                       gTCAGCAGCGGCCAGGATGTCGATGACCTTCTCCGTGTACATGCCCGACAGGCCCCCTTACAACGCACGTGATTCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTg                                                                                                     <  1:656201/150‑1 (MQ=255)                                        cagtcgtcgaaaacgcccccgccaaagctggctagaacctggccaagccgccgctgtttggcatggcgtttctggaaaacatctcgcagatgcccatgctgcgccagatcGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTgg                                                                                                    >  1:472458‑M1/111‑150 (MQ=255)                                           gcagcGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGAAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGgcgc                                                                                                 >  1:355968/1‑150 (MQ=255)                                            cagcGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGCCGGTAATCGGGTTGTTGCGACCCCAGCACCACCGGAAATCGGATGGCCACGCTGCCCGACACGCCTAGCAGCAGGACGCTCTAGCgca                                                                                                >  2:794921/1‑150 (MQ=255)                                                  ccAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATgg                                                                                          <  2:192170/150‑1 (MQ=255)                                                  ccAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATgg                                                                                          >  2:153476/1‑150 (MQ=255)                                                         cccgccaaagctggctcgccagcggccaagccgccgctgtttggcatggcgtttctggaaaacatctcgcagatgcccatgctgcgccagatcGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGa                                                                                                         <  2:615214‑M1/35‑1 (MQ=255)                                                         cccgccaaagctggctcgccagcggccaagccgccgctgtttggcatggcgtttctggaaaacatctcgcagatgcccatgctgcgccagatcGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGa                                                                                                         >  1:615214‑M1/94‑128 (MQ=255)                                                              tGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCgaga                                                                              >  1:272264/1‑150 (MQ=255)                                                                    gCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGtttt                                                                        <  2:818257/150‑1 (MQ=255)                                                                              cATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGc                                                              >  1:7678/1‑150 (MQ=255)                                                                                 gCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCAt                                                           <  2:620492/150‑1 (MQ=255)                                                                                           cTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGATATGTTTTCCAGAAACGCCATGCCAAACAgc                                                 <  1:282307/150‑1 (MQ=255)                                                                                             gCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAgcgg                                               >  1:759931/1‑150 (MQ=255)                                                                                                      cggacggTAATCGGGTTGTTGCGACCACAGCACAACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCCGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGc                                      <  2:241239/150‑1 (MQ=255)                                                                                                                              ccACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCggg              <  1:153476/150‑1 (MQ=255)                                                                                                                                 caGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGc           <  1:535154/150‑1 (MQ=255)                                                                                                                                  aGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAgcgg                                               >  2:175086/1‑113 (MQ=255)                                                                                                                                  aGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAgcgg                                               <  1:175086/113‑1 (MQ=255)                                                                                                                                       cacGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGCGTTTTc     <  1:144077/150‑1 (MQ=255)                                                                                                                                          ggCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCTCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGCGTTTTcgac  <  2:745155/150‑1 (MQ=255)                                                                                                                                          ggCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGCGTTTTcgac  <  2:194165/150‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                          AGCAGGGCCCCCGAGTTGGGCTCCACGTTATAGGGGATGTCAGCAGCGGCCAGGGTGTCCATGACCTGCTTGGTGTCCATGCCCGACAGGCTGCCGTACAACGGACGGTAATCGGGTTGTTGCGACCACAGCACCACGGCAAAGCCGATGGCCACGCTGGCCGCCAGGCCGACCAGGAGGCCGATCTGGCGCAGCATGGGCATCTGCGAGATGTTTTCCAGAAACGCCATGCCAAACAGCGGCGGCTTGGCCGCTGGCGAGCCAGCTTTGGCGGGGGCGTTTTCGAC  >  NC_002947/4960214‑4960500

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.