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

TGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCC  >  NC_002947/3816205‑3816483                                                                                                                                              |                                                                                                                                            gcccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGc                                                                                                                                      >  7:134059‑M1/90‑149 (MQ=255)  cccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCaa                                                                                                                                             <  1:103769‑M1/53‑1 (MQ=255)  cccgaggtacctgaacaggtacgcagtggcgcattgaaaatgtggccggggcggcgcgaggcgcgctggggcgcagccacgctggaatTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCaa                                                                                                                                             >  2:103769‑M1/89‑141 (MQ=255)      ctgACGTGCACGTCGATGCGTCGGTCATAACGGGTCTGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGCCCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTgg                                                                                                                                  <  4:37240/148‑1 (MQ=255)                              tCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGcgcc‑g                                                                                                       >  1:265015/1‑149 (MQ=255)                                aTAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCgcc‑gcc                                                                                                     >  7:157774/1‑149 (MQ=255)                                          aGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACAt                                                                                           >  8:229525/1‑149 (MQ=255)                                              gccggccCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACAtttt                                                                                        >  4:139736/1‑148 (MQ=255)                                               ccggccCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCa                                                                                      <  3:260604/149‑1 (MQ=255)                                                        ggCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCAc                                                                             <  5:246911/149‑1 (MQ=255)                                                        ggCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCAc                                                                             >  7:219896/1‑149 (MQ=255)                                                               aGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                                                                      <  7:235691/149‑1 (MQ=255)                                                                 cGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCt                                                                    <  4:27470/149‑1 (MQ=255)                                                                  gACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTg                                                                   >  2:39718/1‑149 (MQ=255)                                                                   aCAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGt                                                                  >  6:175486/1‑149 (MQ=255)                                                                   aCAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGt                                                                  <  3:139736/149‑1 (MQ=255)                                                                     aGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                                                                      <  5:169919/143‑1 (MQ=255)                                                                     aGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTAc                                                                      >  6:169919/1‑143 (MQ=255)                                                                      ggTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCa                                                               <  7:229525/149‑1 (MQ=255)                                                                            gcttgctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCCCTGCGTACCTGTTCAGGTAcc                                                         >  3:39579/1‑149 (MQ=255)                                                                             cttgctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTAcc                                                         <  1:39718/148‑1 (MQ=255)                                                                                gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCCTGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGt                                                            <  1:55351/143‑1 (MQ=255)                                                                                gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGt                                                            >  2:55351/1‑142 (MQ=255)                                                                                gctGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGAACAGGTAcgca                                                       <  8:157774/147‑4 (MQ=255)                                                                                  gctggaattgaccggctccgagttcagcctgctcgaagccctggcgcgccaggccggtcaATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGgc                                                   >  7:134059‑M2/61‑149 (MQ=255)                                                                                      cAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGACC‑CCGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACAGCGTACCTGTTCAGGTACCTCGGgcgcgc                                               >  5:225246/1‑149 (MQ=255)                                                                                         ttgaccggctccgagttcagcctgctcgaagccctggcgcgccaggccggtcaATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCggg                                                    <  1:103769‑M2/88‑1 (MQ=255)                                                                                         ttgaccggctccgagttcagcctgctcgaagccctggcgcgccaggccggtcaATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCggg                                                    >  2:103769‑M2/54‑141 (MQ=255)                                                                                              CGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCa                                       <  1:65484‑M1/149‑1 (MQ=255)                                                                                               GGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCAc                                      >  4:240124‑M1/1‑149 (MQ=255)                                                                                               GGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCAc                                      >  8:219896‑M1/1‑149 (MQ=255)                                                                                                GCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCAcc                                     >  5:175486‑M1/1‑149 (MQ=255)                                                                                                        cgcCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGt                             <  2:65484/149‑1 (MQ=255)                                                                                                           cAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTgg                                            <  8:112082/131‑1 (MQ=255)                                                                                                           cAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATg                          <  6:199227/149‑1 (MQ=255)                                                                                                           cAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATg                          >  6:44422/1‑149 (MQ=255)                                                                                                           cAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACATCGGGCGCGCTgg                                            >  7:112082/1‑131 (MQ=255)                                                                                                               gCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCCACAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCt                       >  1:67196/1‑149 (MQ=255)                                                                                                                          gCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACg             >  4:174121/1‑147 (MQ=255)                                                                                                                            tGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAg          >  5:212819/1‑148 (MQ=255)                                                                                                                                 tCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGc    >  7:148344/1‑149 (MQ=255)                                                                                                                                   ggAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGccc  >  6:225789/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                            TGCTGCTGACGTGCACGTCGATGCGTCGGTCATAACGGGTCAGCGGCCGGCCCAGGGCATTGAGCGACAGGTCCTGCTTGCTGACCAGCTGACCGGCCTGGCGCGCCAGGGCTTCGAGCAGGCTGAACTCGGAGCCGGTCAATTCCAGCGTGGCTGCGCCC‑CAGCGCGCCTCGCGCC‑GCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCC  >  NC_002947/3816205‑3816483

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.