New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3816294 =	26 (0.620)	3 (0.080)	3/242	NT	9.9%	coding (527/702 nt)	cpxR	two‑component system regulator CpxR
	?	NC_002947	3816346 =	30 (0.760)					coding (475/702 nt)	cpxR	two‑component system regulator CpxR

CGCTCTGGATCCAGCTGCTGCCATCGGCACGCGGGCCAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGC  >  NC_002947/3816154‑3816438                                                                                                                                             |                                                                                                                                                  cGCTCTGGATCCTGCTGCTGCCATCGGCACGCGGGCCAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGTGTCAGCGGCCGGCCCAGGGAATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGcc                                                                                                                                           <  2:218509/149‑1 (MQ=255)    tctGGATCCAGCTGCTGCCATCGGCACGCGGGCCAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTgg                                                                                                                                        >  1:181914/1‑149 (MQ=255)                 gctgcCATCGGCACGCGGGCCAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCtt                                                                                                                           >  6:246911/1‑149 (MQ=255)                     ccATCGTCACGCGGGCCAAGTTTTTGCCGGATCCTGCTGACGTGCACGTCGATGCGTCGGCCATAACGGGGCCGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAg                                                                                                                       <  7:96773/149‑1 (MQ=255)                                     cAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAg                                                                                                       >  4:260604/1‑149 (MQ=255)                                                    gcccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGc                                                                                        >  7:134059‑M1/90‑149 (MQ=255)                                                     cccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCaa                                                                                               >  2:103769‑M1/89‑141 (MQ=255)                                                     cccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCaa                                                                                               <  1:103769‑M1/53‑1 (MQ=255)                                                         ctgACGTGCACGTCGATGCGTCGGTCATAACGGGTCTGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGCCCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTgg                                                                                    <  4:37240/148‑1 (MQ=255)                                                                                 tCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGcgcc‑g                                                          >  1:265015/1‑149 (MQ=255)                                                                                   aTAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCgcc‑gcc                                                        >  7:157774/1‑149 (MQ=255)                                                                                             aGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACAt                                              >  8:229525/1‑149 (MQ=255)                                                                                                 gccggccCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACAtttt                                           >  4:139736/1‑148 (MQ=255)                                                                                                  ccggccCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCa                                         <  3:260604/149‑1 (MQ=255)                                                                                                           ggCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCAc                                <  5:246911/149‑1 (MQ=255)                                                                                                           ggCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCAc                                >  7:219896/1‑149 (MQ=255)                                                                                                                  aGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                         <  7:235691/149‑1 (MQ=255)                                                                                                                    cGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCt                       <  4:27470/149‑1 (MQ=255)                                                                                                                     gACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTg                      >  2:39718/1‑149 (MQ=255)                                                                                                                      aCAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGt                     >  6:175486/1‑149 (MQ=255)                                                                                                                      aCAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGt                     <  3:139736/149‑1 (MQ=255)                                                                                                                        aGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                         <  5:169919/143‑1 (MQ=255)                                                                                                                        aGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                         >  6:169919/1‑143 (MQ=255)                                                                                                                         ggTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCa                  <  7:229525/149‑1 (MQ=255)                                                                                                                               gcttgctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCCCTGCGTACCTGTTCAGGTAcc            >  3:39579/1‑149 (MQ=255)                                                                                                                                cttgctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTAcc            <  1:39718/148‑1 (MQ=255)                                                                                                                                   gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCCTGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGt               <  1:55351/143‑1 (MQ=255)                                                                                                                                   gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGt               >  2:55351/1‑142 (MQ=255)                                                                                                                                   gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGAACAGGTAcgca          <  8:157774/147‑4 (MQ=255)                                                                                                                                         cAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGACCCCGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACAGCGTACCTGTTCAGGTACCTCGGgcgcgc  >  5:225246/1‑149 (MQ=255)                                                                                                                                             |                                                                                                                                                  CGCTCTGGATCCAGCTGCTGCCATCGGCACGCGGGCCAAGTTTTTGCCGGATGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCCAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGC  >  NC_002947/3816154‑3816438

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.