New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	975171 =	43 (0.870)	3 (0.070)	3/216	NT	9.6%	intergenic (+20/+149)	ycfJ/suhB	flagella biosyntheis regulator/bifunctional inositol monophosphatase/glycerol‑2‑phosphatase
	?	NC_002947	975243 =	20 (0.480)					intergenic (+92/+77)	ycfJ/suhB	flagella biosyntheis regulator/bifunctional inositol monophosphatase/glycerol‑2‑phosphatase

GACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGATGGCAGTCAGTACCGCCTTGAAGCACTTGATGTTGC  >  NC_002947/975097‑975390                                                                                                                                                    |                                                                                                                                                    gACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCg                                                                                                                                                   >  1:211253/1‑149 (MQ=255)  aCCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCgg                                                                                                                                                  >  4:202566/1‑149 (MQ=255)          gCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATGCATGTAGGAGCGGGTTTACCCGCGAAAAGGTCGGTACAGGc                                                                                                                                           >  5:33743/1‑148 (MQ=255)                   gAATNGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAac                                                                                                                                 >  5:171007/1‑149 (MQ=255)                   gAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑CATACTAAACGGGCAATGCGATCCATGTAGGAGCGGGTTTTCCCGCGAAGACGTCGGTACAGGCCCCGCAAAac                                                                                                                                 >  1:149146/1‑149 (MQ=38)                    aaTGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGGGCCGGCCTCTGCGCGGGTAAACCC‑GAGCCTACCGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAacc                                                                                                                                <  2:51784/149‑1 (MQ=255)                          aaGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCaaa                                                                                                                                   >  7:41809/1‑140 (MQ=255)                          aaGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTA‑CCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGc                                                                                                                         >  8:201783/1‑149 (MQ=255)                                 ttCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACaaa                                                                                                                    >  4:200030/1‑148 (MQ=255)                                         gAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCt                                                                                                           >  7:167135/1‑149 (MQ=255)                                              gggTCAGTGATTGGCGGTGTTTGGGCCGGCCTCTTCGCGGTTAAACCC‑GATCCTCCAGGGGCAATGCTAGCCATGTAGGCGGGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAaga                                                                                                      <  2:221105/149‑1 (MQ=38)                                               ggTCTGTGTTTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAACCCC‑GATCCTACAGGGGCAATGCGATCCATTTAGGAGCGGTTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAagag                                                                                                     <  8:186047/149‑1 (MQ=38)                                                   aGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCCTGATCGTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCCCGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTg                                                                                                  >  1:220211/1‑149 (MQ=255)                                                          tGCGGTGTCTGTGCCGGCCTCTGCCCGGGTAAACCC‑CATCCTACCGGGGCAATGCGATCCATGTAGGCGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttg                                                                                           <  2:220211/148‑1 (MQ=38)                                                            cGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttgttt                                                                                        >  2:55515/1‑149 (MQ=255)                                                                   ggtcccGGCCTCTTCGCGGGTAACCCC‑GATCCTACCGGGCCAATGCGATCAATGTAGCAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCa                                                                                 <  3:202566/145‑1 (MQ=38)                                                                           CCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTgcgc                                                                         >  3:200030‑M1/1‑149 (MQ=255)                                                                           CCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACC‑GCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCt                                                                        >  7:201783‑M1/1‑149 (MQ=255)                                                                             TCTTCGCGGGTAACCCC‑GATCCTACCGGGGCAAGGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGc                                                                                      >  6:324811‑M1/1‑134 (MQ=255)                                                                             TCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGc                                                                                      <  5:324811‑M1/134‑1 (MQ=255)                                                                                     GGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCtt                                                                <  8:136254‑M1/148‑1 (MQ=255)                                                                                      ggtaaacccgctcctacatggatcgcattgcccctgtaggatcgggtttacccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCtt                                                                >  6:33777‑M2/63‑148 (MQ=255)                                                                                           CCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCtt                                                         >  2:211253‑M1/1‑149 (MQ=255)                                                                                            cccgctcctacatggatcgcattgcccctgtaggatcgggtttacccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttg                                                                                           <  8:154948‑M2/59‑1 (MQ=255)                                                                                            cccgctcctacatggatcgcattgcccctgtaggatcgggtttacccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTtttg                                                                                           >  7:154948‑M2/57‑115 (MQ=255)                                                                                                    tACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAg                                                 >  2:135689/1‑149 (MQ=255)                                                                                                    tACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAg                                                 >  6:105955/1‑149 (MQ=255)                                                                                                      cAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGt                                               <  7:136254/149‑1 (MQ=255)                                                                                                                 cGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGAt                                     <  1:135689/148‑1 (MQ=255)                                                                                                                    tCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGATGGca                                 <  5:105955/149‑1 (MQ=255)                                                                                                                       aTGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGATGGcagtc                              <  1:55515/149‑1 (MQ=255)                                                                                                                               gCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCgg                                           >  4:187739/1‑128 (MQ=255)                                                                                                                               gCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCgg                                           <  3:187739/128‑1 (MQ=255)                                                                                                                               gCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTAGCCGGCAATCTGCGATTAGCGCTTCATGCTTTCTGGCAGGTCCGGCTGGATGGCAGTCAGTACCGc                      >  1:125135/1‑149 (MQ=255)                                                                                                                                         ccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGc                                                   <  2:154213‑M2/99‑1 (MQ=255)                                                                                                                                         ccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGc                                                   >  1:154213‑M2/12‑110 (MQ=255)                                                                                                                                         ccgcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGGAGGTGCGGCTGGATGGCAGTCAGTACCGCCTTGAAGCAc            >  7:227124‑M2/12‑149 (MQ=255)                                                                                                                                           gcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGAt                                     >  7:208566‑M2/10‑122 (MQ=255)                                                                                                                                           gcgaagaggTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGAt                                     <  8:208566‑M2/113‑1 (MQ=255)                                                                                                                                                   gTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGATGGCAGTCAGTACCGCCTTGAAGCACTTGATGTTGc  <  8:167135‑M2/148‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                    GACCATTCCGCTGGACAAGAATGGCAAGCTGATTCTGAGCGAAGCGGGTCAGTGATTTGCGGTGTCTGTGCCGGCCTCTTCGCGGGTAAACCC‑GATCCTACAGGGGCAATGCGATCCATGTAGGAGCGGGTTTACCCGCGAAGAGGTCGGTACAGGCCACGCAAAACCACCAGGCACAAAAAAGCACCTCAAGAGGTGCTTTTTGTTTGCCGGCAATCTGCGCTTAGCGCTTCATGCTTTCTGGCAGGTGCGGCTGGATGGCAGTCAGTACCGCCTTGAAGCACTTGATGTTGC  >  NC_002947/975097‑975390

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.