New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5168047	20 (1.060)	4 (0.240)	4/216	NT	16.8%	intergenic (‑120/‑384)	hrpA/PP_4547	ATP‑dependent helicase HrpA/glutamine synthetase
	?	NC_002947	= 5168063	22 (1.340)					intergenic (‑136/‑368)	hrpA/PP_4547	ATP‑dependent helicase HrpA/glutamine synthetase

TGGTCAGTCATGGGGCTTTTTAGTGATGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAGGCATGACTCCCGCCCAGC  >  NC_002947/5167917‑5168196                                                                                                                                                   |                                                                                                                                      tGGTCAGTCATGGGGCTTTTTAGTGATGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGcaa                                                                                                                                    <  1:436252‑M2/150‑4 (MQ=255)             gggCTTTTTAGTGATGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGcaaggccgcttccac                                                                                                                        <  2:175575‑M2/150‑16 (MQ=255)                           tGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGc                                                                                                          >  1:154664/1‑150 (MQ=255)                           tGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGc                                                                                                          <  1:175575/150‑1 (MQ=255)                           tGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGc                                                                                                          >  2:429457/1‑150 (MQ=255)                            gCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTTGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCt                                                                                                         >  2:246780/1‑150 (MQ=255)                                     ccTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACg                                                                                                >  2:302383/1‑150 (MQ=255)                                        gCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAAt                                                                                             <  1:22450/150‑1 (MQ=255)                                                                aaGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAgg                                                                     <  1:246780/150‑1 (MQ=255)                                                                    cGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGc                                                                 <  2:502087/150‑1 (MQ=255)                                                                     gggCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGcc                                                                >  2:62023/1‑150 (MQ=255)                                                                        cGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCAtt                                                             <  1:462803/150‑1 (MQ=255)                                                                        cGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCAtt                                                             <  1:302383/150‑1 (MQ=255)                                                                                              tctcTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTAcg                                       <  2:172646/150‑1 (MQ=255)                                                                                                tctGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAAt                                                 <  2:204975/138‑1 (MQ=255)                                                                                                tctGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAAt                                                 >  1:204975/1‑138 (MQ=255)                                                                                                              gCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCa                       >  2:194597/1‑150 (MQ=255)                                                                                                                tCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTaa                                                  <  1:152397/121‑1 (MQ=255)                                                                                                                tCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTaa                                                  >  2:152397/1‑121 (MQ=255)                                                                                                                   cTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAGGc                  <  1:194597/150‑1 (MQ=255)                                                                                                                         aaGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAGGCATGACt            >  2:26158/1‑150 (MQ=255)                                                                                                                              gCCTTGTGTCGCGATAGGGCCGcaaggccgcttccacagggagcgtgcaggcagcagagaatccgcaaatctgcgacaatcgcccgactttccgaatgccgatca                                                    <  1:37335‑M2/105‑84 (MQ=255)                                                                                                                              gCCTTGTGTCGCGATAGGGCCGcaaggccgcttccacagggagcgtgcaggcagcagagaatccgcaaatctgcgacaatcgcccgactttccgaatgccgatca                                                    >  2:37335‑M2/1‑22 (MQ=255)                                                                                                                                 ttGTGTCGCGATAGGGCCGcaaggccgcttccacagggagcgtgcaggcagcagagaatccgcaaatctgcgacaatc                                                                            <  1:309472‑M2/78‑60 (MQ=255)                                                                                                                                 ttGTGTCGCGATAGGGCCGcaaggccgcttccacagggagcgtgcaggcagcagagaatccgcaaatctgcgacaatc                                                                            >  2:309472‑M2/1‑19 (MQ=255)                                                                                                                                 ttGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAg                    <  2:86148/134‑1 (MQ=255)                                                                                                                                 ttGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAg                    >  1:86148/1‑134 (MQ=255)                                                                                                                                   gtgtCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAGGCATGACTCCCgcccagc  <  2:154664/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                      TGGTCAGTCATGGGGCTTTTTAGTGATGCAGGTGAGCCTGCTTTTTCATGATCGGCATTCGGAAAGTCGGGCGATTGTCGCAGATTTGCGGATTCTCTGCTGCCTGCACGCTCCCTGTGGAAGCGGCCTTGTGTCGCGATAGGGCCGCAAGGCCGCTTCCACTTTGACCGTGGTGCTTTCAACACGAATGTTTAGCCAAGTGCGATGTAAAGGTTGCCATTCACTGCTTTAATCAACCTTACGCCGCATGTGAGTATCAAAGGCATGACTCCCGCCCAGC  >  NC_002947/5167917‑5168196

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.