New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4164704	37 (0.680)	5 (0.100)	5/240	NT	13.5%	intergenic (+54/+63)	PP_3665/PP_3666	AraC family transcriptional regulator/MHS family metabolite MFS transporter
	?	NC_002947	= 4164732	30 (0.600)					intergenic (+82/+35)	PP_3665/PP_3666	AraC family transcriptional regulator/MHS family metabolite MFS transporter

CAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGTCAC  >  NC_002947/4164584‑4164877                                                                                                                                                     |                                                                                                                                                  cAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGt                                                                                                                                                   >  2:316137/1‑149 (MQ=255)  aaGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTt                                                                                                                                                  >  1:316137‑M2/1‑148 (MQ=255)    gagTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTACACTGAGTTGGGTCAGGTATTGGCATTGGTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTtg                                                                                                                                                 <  5:118069‑M2/148‑3 (MQ=255)      gTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTtgtag                                                                                                                                              >  5:252621‑M2/1‑144 (MQ=255)             ccGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGt                                                                                                                                        <  5:191766/148‑1 (MQ=255)             ccGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGt                                                                                                                                        >  6:191766/1‑148 (MQ=255)              cGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTga                                                                                                                                      <  7:63191/149‑1 (MQ=255)                      cGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAgaagaa                                                                                                                                <  2:226699/147‑1 (MQ=255)                          cTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGt                                                                                                                          >  2:72646/1‑149 (MQ=255)                           tGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTg                                                                                                                         >  5:259991/1‑149 (MQ=255)                                  tttAGGGGAGCGGCGGCAGGCGTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTc                                                                                                                   >  3:56181/1‑148 (MQ=255)                                     aGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAAc                                                                                                                <  7:24545/148‑1 (MQ=255)                                         gAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATc                                                                                                           >  5:61536/1‑149 (MQ=255)                                              gcggcAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCaa                                                                                                      <  6:61536/149‑1 (MQ=255)                                                         ctctcCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAAc                                                                                                                >  6:179199/1‑128 (MQ=255)                                                         ctctcCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAAc                                                                                                                <  5:179199/128‑1 (MQ=255)                                                                     ttGTGTCAGGTATTGGCATTGCTGGCCTCTTCGCGTGAAAGCGCGCGCCTACAAGCACATCGGTGGTCCGCCACAGGCCGTAGTAGGCGCGTGAGTGGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCTCCGTCTCCCGa                                                                               <  6:118069/149‑1 (MQ=255)                                                                     ttGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGa                                                                               <  1:72646/149‑1 (MQ=255)                                                                     ttGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGa                                                                               <  4:59067/149‑1 (MQ=255)                                                                        ggTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGacac                                                                            <  6:259991/149‑1 (MQ=255)                                                                           cAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATc                                                                         <  6:176489/149‑1 (MQ=255)                                                                                 ttGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATg                                                                   >  4:69776/1‑149 (MQ=255)                                                                                     cATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTgag                                                                                                                                     >  3:83873/1‑79 (MQ=255)                                                                                     cATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTgag                                                                                                                                     <  4:83873/79‑1 (MQ=255)                                                                                           tGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAgcg                                                         >  4:145072/1‑149 (MQ=255)                                                                                           tGGCCTCTTCGCGGGCAAGCAAGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTACAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAgcg                                                         >  6:221102/1‑149 (MQ=255)                                                                                                tctTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGccac                                                     >  5:290540/1‑148 (MQ=255)                                                                                                  ttCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAg                                                  >  5:206152/1‑149 (MQ=255)                                                                                                    cgcgGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGtg                                                >  3:133191/1‑149 (MQ=255)                                                                                                     gcgGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGtg                                                <  4:56181/148‑1 (MQ=255)                                                                                                                  cgcCTACACGCACATCGGTGGTCCGCCACAGGCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagtggagagaggcctgccgccgctcccctaaaggcgacagcccgaagaaccggc                                     >  1:83478‑M2/1‑36 (MQ=255)                                                                                                                  cgcCTACACGCACATCGGTGGTCCGCCACAGGCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagtggagagaggcctgccgccgctcccctaaaggcgacagcccgaagaaccggc                                     <  2:83478‑M2/146‑111 (MQ=255)                                                                                                                   gcCTACACGCACATCGGTGGTCCGCCACAGGCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagtggagagaggcctgccgccgctcccctaaaggcgcccgcccgatgacccggctaag                                 <  2:297535‑M2/149‑115 (MQ=255)                                                                                                                   gcCTACACGAACATCGGTGGTCCGCCTCATTCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagttgagagaggcctgccgccgctcccctaaaggcgacagcccgaagaaccggct                                    >  1:297535‑M2/1‑35 (MQ=255)                                                                                                                     cTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATATTCAAGGGCCGCGTGCGCCGTATCCCGACACAACAGCATGGCCACCAGCGCCACAAGTCCTGCCGCCAGCAAGTaa                               >  8:48239/1‑148 (MQ=255)                                                                                                                        cacGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCt                            >  3:68963/1‑149 (MQ=255)                                                                                                                         acGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGTCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTg                           <  8:311479/149‑1 (MQ=255)                                                                                                                         acGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTg                           >  5:221366/1‑149 (MQ=255)                                                                                                                           gCACATCGGTGGTCCGCCACAGGCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagtggagagaggcctgccgccgctcccctaaaggcgacagcccgaagaaccggctataactcttg                          <  2:203586‑M2/148‑122 (MQ=255)                                                                                                                           gCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGGGCCACCAGTGCTGCCGCCAGCAAGTATc                              <  2:185842/144‑1 (MQ=255)                                                                                                                           gCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGGGCCACCAGTGCTGCCGCCAGCAAGTATc                              >  1:185842/1‑144 (MQ=255)                                                                                                                                      gtCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCACTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCtt              >  5:113671/1‑149 (MQ=255)                                                                                                                                        ccGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTtgc            >  8:221165/1‑149 (MQ=255)                                                                                                                                                ggCCGTTGTAGGCGCGTGAGAAGAAGCCAGAGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGt     >  8:12009/1‑148 (MQ=255)                                                                                                                                                 gCCGTtgtaggcgcgggcttgcccgcgaagaggccagcaatgccaatacctgacccaactcagtggagagaggcctgccgccgctcccctaaaggcgacagcccgaagaaccggctataactcttggaaaaatgcgcaggcgaactgaa   >  1:203586‑M2/1‑5 (MQ=255)                                                                                                                                                 gCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCaa                                   <  5:346642/117‑1 (MQ=255)                                                                                                                                                 gCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCaa                                   >  6:346642/1‑117 (MQ=255)                                                                                                                                                 gCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGTCa   >  2:301755/1‑149 (MQ=255)                                                                                                                                                 gCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGAAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGTCa   >  4:221888/1‑149 (MQ=255)                                                                                                                                                  ccGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGTCAc  <  6:206152/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                  CAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTGCTGCCGCCAGCAAGTATCCTGCCGGGGCCAGCTTGCTGCCCGTCAC  >  NC_002947/4164584‑4164877

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.