New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5509745	36 (1.280)	3 (0.120)	3/224	NT	8.0%	intergenic (+36/‑105)	urtA/urtB	urea ABC transporter substrate‑binding protein/urea ABC transporter permease
	?	NC_002947	= 5509807	36 (1.400)					intergenic (+98/‑43)	urtA/urtB	urea ABC transporter substrate‑binding protein/urea ABC transporter permease

GTTCATTCCGGGCAATGACAAGCGGCCAGATTACGCCGTGAAAGGTAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCT  >  NC_002947/5509658‑5509956                                                                                                                                                      |                                                                                                                                                      gTTCATTCCGGGCAATGACAAGCGGCCAGATTACGCCGTGAAAGGTAACTGAGGGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCTCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGc                                                                                                                                                       <  1:714502/150‑1 (MQ=255)                    aaGCGGCCAGATTACGCCGTGAAAGGTAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCaa                                                                                                                                    <  2:522968/150‑1 (MQ=255)                      gCGGCCAGATTACGCCGTGAAAGGTAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCACGAAGAATCCAaca                                                                                                                                  >  1:341438/1‑150 (MQ=255)                           cAGATTACGCCGTGAAGGGTAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGAt                                                                                                                             <  2:205143/150‑1 (MQ=255)                                              tAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGATGAAACCGCTCCTACAAGGACCCCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATg                                                                                                          >  2:719505/1‑150 (MQ=255)                                                  tGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCa                                                                                                      >  2:300853/1‑150 (MQ=255)                                                         aTGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGATTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCCCCCCCGAAGAATCCAACACCGATTTCCAGGCTTGCCCGCATGCTCAGACTCCt                                                                                               >  1:176434/1‑150 (MQ=255)                                                           ggggCTGCTTTGCAGCCCATTCGCGGGTGACCCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGc                                                                                             <  1:122402/150‑1 (MQ=255)                                                                   tttGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACcctc                                                                                     >  1:579765/1‑150 (MQ=255)                                                                        aGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCctgct                                                                                <  2:168445/150‑1 (MQ=255)                                                                         gCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGAc                                                                                                   <  2:576631/130‑1 (MQ=255)                                                                         gCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGAc                                                                                                   >  1:576631/1‑130 (MQ=255)                                                                          cccATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCtgctgc                                                                              >  1:187508/1‑150 (MQ=255)                                                                          cccATTCGCGGGTGAACCCGCTCATACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCaa                                                                                                                                    <  2:690537/96‑1 (MQ=255)                                                                          cccATTCGCGGGTGAACCCGCTCATACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCaa                                                                                                                                    >  1:690537/1‑96 (MQ=255)                                                                            cATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATc                                                                                                                                       <  2:690260/91‑1 (MQ=255)                                                                            cATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATc                                                                                                                                       >  1:690260/1‑91 (MQ=255)                                                                             aTTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTaa                                                                           >  1:472324/1‑150 (MQ=255)                                                                              ttCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATcc                                                                                                                                      <  2:429413/90‑1 (MQ=255)                                                                              ttCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATcc                                                                                                                                      >  1:429413/1‑90 (MQ=255)                                                                                   gggTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCtcacccgcgaatgggctgcaaagcagccccatgcactcagttacctttcacggcgtaatctggccgcttgtcattgcccgga                                                                     <  1:325258‑M2/150‑83 (MQ=255)                                                                                   gggTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTcc                                                                                                <  1:659467/123‑1 (MQ=255)                                                                                   gggTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTcc                                                                                                >  2:659467/1‑123 (MQ=255)                                                                                    ggTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTTCTGCTAAt                                                                          >  2:155514/1‑144 (MQ=255)                                                                                    ggTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTTCTGCTAAt                                                                          <  1:155514/144‑1 (MQ=255)                                                                                     gTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTg                                                                   >  1:195371/1‑150 (MQ=255)                                                                                       gAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTCAAAGGATTGCCCGCATGCTCATACGCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGc                                                                 >  1:499140/1‑150 (MQ=255)                                                                                         aCCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCaa                                                               <  2:187508/150‑1 (MQ=255)                                                                                          cccGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCtcacccgcgaatgggctgcaaagcagccccatgcactcagttacctttcacggc                                                                                                 <  1:44951‑M2/115‑55 (MQ=255)                                                                                          cccGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCtcacccgcgaatgggctgcaaagcagccccatgcactcagttacctttcacggc                                                                                                 >  2:44951‑M2/1‑61 (MQ=255)                                                                                             gCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCa                                                           >  2:54609/1‑150 (MQ=255)                                                                                                        gACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAgg                                                >  2:705948/1‑150 (MQ=255)                                                                                                        gACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAgg                                                <  2:579765/150‑1 (MQ=255)                                                                                                        gACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAgg                                                >  1:341298/1‑150 (MQ=255)                                                                                                                   tttCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAAttcttt                                     <  1:705948/150‑1 (MQ=255)                                                                                                                           cTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGc                             >  2:128209/1‑150 (MQ=255)                                                                                                                            ttGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGcc                            >  2:155776/1‑150 (MQ=255)                                                                                                                            ttGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGcc                            >  1:364354/1‑150 (MQ=255)                                                                                                                               cACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAg                         <  1:300853/150‑1 (MQ=255)                                                                                                                                aCCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGc                        >  2:136043/1‑150 (MQ=255)                                                                                                                                aCCGTCGCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGc                        <  2:176434/150‑1 (MQ=255)                                                                                                                                 ccGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGcc                       >  1:332266/1‑150 (MQ=255)                                                                                                                                                   gggCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCt     <  2:332266/150‑1 (MQ=255)                                                                                                                                                      cTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGCCTCCGGCTCACCCTCCTGCCGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCCTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCt  <  1:607264/150‑1 (MQ=255)                                                                                                                                                      cTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCt  <  1:136043/150‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                      GTTCATTCCGGGCAATGACAAGCGGCCAGATTACGCCGTGAAAGGTAACTGAGTGCATGGGGCTGCTTTGCAGCCCATTCGCGGGTGAACCCGCTCCTACAAGGACCGCGCAGGTTTCAAACCTTGCACCGTCTCTGTGTAGGAGCGGGCTCACCCGCGAAGAATCCAACACCGATTTCCAGGATTGCCCGCATGCTCAGACTCCTGCTCACCCTCCTGCTGCTAATCCCCCTGGCAACCCACGCCAGCGAGGGCGAATTCTTTCTCACCGCCAAGCCCGCCGAGCAGGCCGGCCTGCT  >  NC_002947/5509658‑5509956

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.