New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1311719	22 (0.520)	5 (0.130)	5/232	NT	18.3%	intergenic (‑187/+91)	PP_1144/rapA	membrane protein/RNA polymerase‑associated protein RapA
	?	NC_002947	= 1311778	25 (0.660)					intergenic (‑246/+32)	PP_1144/rapA	membrane protein/RNA polymerase‑associated protein RapA

ACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGC  >  NC_002947/1311636‑1311918                                                                                                                                               |                                                                                                                                              acaATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCCCGAAGCAAACACAGCGGTGGATGGCACCGGCGTTGGCCGTGTTAGCGGGCGTgcccc                                                                                                                                          <  4:241049‑M2/148‑6 (MQ=255)   aaTGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCCCGACGCAACCACAGCCGTGGGTGCCACCCGCTTTGCCGGTGTTAGCCGGCGTgcccgcga                                                                                                                                       <  2:75906‑M2/149‑9 (MQ=255)           cTACGATTGGGTAATACCTCCAATCGCAGTGAGGAAAAAATTGGGGGCCCTACGCCCTGCCTGGGGGAGCGGGCGACCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAg                                                                                                                                <  3:104860/148‑1 (MQ=25)                       tataACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGccc                                                                                                                   >  2:67181/1‑148 (MQ=255)                                          aGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAg                                                                                                 <  1:75906/148‑1 (MQ=255)                                            gAATAAATTTGGGGCCCTAATGCCTTCCTGGGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagccagcc                                                                                                      <  7:133503/141‑1 (MQ=255)                                                           ccTAAGGCCTGCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAAt                                                                                       <  5:6341/140‑1 (MQ=255)                                                                  ccTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAgg                                                                       <  3:196960/149‑1 (MQ=255)                                                                       cTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGggcgg                                                                   <  1:28161/148‑1 (MQ=255)                                                                          tgGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCtt                                                               <  3:241049/149‑1 (MQ=255)                                                                          tgGGAGCGGGCGAGCCCGCGAAGCAAACACAGCGGGGGAAGCCACCCGCATTTCCCGTGTTGGCGGGCGTGCCCCCACCCACAACGGGCGCGGGGCCTGCGCTAGCCACCCCCCACCA‑CCCCAATGGCATGCACGCCCACCGCGGccc                                                                >  8:84148/1‑147 (MQ=255)                                                                           gggAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatca                                                               <  6:276533‑M2/149‑81 (MQ=255)                                                                              aGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTcc                                                           <  2:251147/149‑1 (MQ=255)                                                                              aGCGGGCGAGCCCGCGAAACATCCACTGCGGTGGATTCCACCCGCATTTCCGGTTTTAGCGGGCGTGCCCGCTACCCCAAAGGGCGCGGGGCCAGCCCTAGCCCACCAACACCC‑CGCGAAAGGCGTGAAGGCGCAGGGCGGCCTtcaa                                                            >  4:163420/1‑146 (MQ=255)                                                                                    cGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCTCgcccgctcccacaggaaagcattagggccccaaatttattccacactgcgattcgagttataaccaaatcgtataaatcattgttaca                                                       <  5:212196‑M2/148‑89 (MQ=255)                                                                                        cccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGc                                                   >  3:187304/1‑147 (MQ=255)                                                                                        cccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTAGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGc                                                   >  1:59221/1‑147 (MQ=255)                                                                                         ccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagt                                                  <  6:90482‑M2/148‑94 (MQ=255)                                                                                                 cATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCCGCGCTAGCCAGCCACCAGCACCGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCt                                         <  1:67181/149‑1 (MQ=255)                                                                                                  aTCCAGTGCGTTGGATGCGAGCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCAGCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTc                                       <  7:235031/149‑1 (MQ=39)                                                                                                      aCTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagtcaggaaggcttaag                                    >  5:276533‑M2/1‑42 (MQ=255)                                                                                                       cTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCATGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGcgcc                                  <  7:84148/149‑1 (MQ=255)                                                                                                                   ccACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAggg                      <  4:187304/149‑1 (MQ=255)                                                                                                                   ccACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAggg                      <  2:59221/149‑1 (MQ=255)                                                                                                                   ccACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAggg                      >  1:207337/1‑149 (MQ=255)                                                                                                                   ccACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAgg                       <  2:207337/148‑1 (MQ=255)                                                                                                                       cGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagtcaggaaggcttaagtactccttcctatactg                   >  5:90482‑M2/1‑25 (MQ=255)                                                                                                                            ttGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGAt               >  5:212330/1‑147 (MQ=255)                                                                                                                            ttGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGAt               <  6:212330/147‑1 (MQ=255)                                                                                                                            ttGCCGGTGTTCGCGGGCGTGCCCCCAACCACAAAGGGCGCGGGGCCAGCGCAAGCCACCCACCACCA‑CGCGAATGGCTTACACGCGCAGGGCGGCCATATCCAGCAATGCCAAGCCAAATTAGCGCCCCATGCGCAGGGCCTAGAtt              >  6:186767/1‑148 (MQ=255)                                                                                                                               ccGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCg           <  7:160217/148‑1 (MQ=255)                                                                                                                                 ggTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCTGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTg        <  3:163420/149‑1 (MQ=255)                                                                                                                                        gcgGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGc  <  5:184334/148‑1 (MQ=255)                                                                                                                                               |                                                                                                                                              ACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCA‑CGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGC  >  NC_002947/1311636‑1311918

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.