New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6000959 =	24 (1.030)	4 (0.230)	4/194	NT	20.4%	intergenic (+10/+99)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase
	?	NC_002947	6001053 =	13 (0.730)					intergenic (+104/+5)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase

CAGCAGCGTGGCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAA  >  NC_002947/6000818‑6001100                                                                                                                                               |                                                                                                                                              tcaagggcgaggcggacagcctgccgattccgttttcgccgatgagcggtgtgagcgcgccttcgctgcggacagcgttctatgagtccggtttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCtt                                                                                                                                        <  2:126464‑M1/8‑1 (MQ=255)  caagggcgaggcggacagcctgccgattccgttttcgccgatgagcggtgtgagcgcgccttcgctgcggacagcgttctatgagtccggtttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTc                                                                                                                                       <  1:539090‑M1/9‑1 (MQ=255)     agcGTGGCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCgg                                                                                                                                   <  2:217333/150‑1 (MQ=255)           gCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCTTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGCGCAA‑GTGCTCGCCGCTTCTCGGGTAAAc                                                                                                                             <  2:194281/150‑1 (MQ=255)           gCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTacac                                                                                                                             <  2:58324/150‑1 (MQ=255)                                       gCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTga                                                                                                 <  2:239077/150‑1 (MQ=255)                                         aGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCgg                                                                                                                                   >  2:197705/1‑114 (MQ=255)                                         aGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCGTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCgg                                                                                                                                   <  1:197705/114‑1 (MQ=255)                                              ttCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCt                                                                                          >  1:419943/1‑150 (MQ=255)                                                      agcgcgccttcgctgcggacagcgttctatgagtccggtttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGa                                                                                   <  2:349979‑M1/61‑1 (MQ=255)                                                            ccttcgctgcggacagcgttctatgagtccggtttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtacgtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGt                                                                             >  1:349979‑M1/84‑150 (MQ=255)                                                                   tCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCgg                                                                     <  1:52011/150‑1 (MQ=255)                                                                      ttgttgttgCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCt                                                                               <  1:519146/137‑1 (MQ=255)                                                                      ttgttgttgCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCt                                                                               >  2:519146/1‑137 (MQ=255)                                                                                aGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGaa                                                        >  1:207638/1‑150 (MQ=255)                                                                                  aaGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAaga                                                      <  2:470892/150‑1 (MQ=255)                                                                                   aGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAagag                                                     <  2:440201/150‑1 (MQ=255)                                                                                   aGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAG‑CAGTTTGGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAagag                                                     <  1:38235/150‑1 (MQ=38)                                                                                    gCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAgg                                                    <  2:492091/150‑1 (MQ=255)                                                                                             gatgaagaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGTGGGTAAAACCGCGCCTACAAGTTATGCGCCGCCTGAGAGGGCTGCGGAGAACCTGTAGGAGCTTGGTTACCCGCGGAGAGGCCACTAGtt                                           >  1:243344/5‑150 (MQ=255)                                                                                                 aagaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGGTCCTACATGTAGTTGACGGCCTGATAGGGCGGTGGGGAACCGGTAGTGGCGGGGTTACGCGCGGAGGGGCCAGTACTTacca                                       >  2:129871/1‑148 (MQ=25)                                                                                                  gctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAAc                                                                                 >  2:243880‑M1/46‑108 (MQ=255)                                                                                                  gctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAAc                                                                                 <  1:243880‑M1/63‑1 (MQ=255)                                                                                                                        gttgCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACt                                            <  2:156894/122‑1 (MQ=255)                                                                                                                        gttgCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACt                                            >  1:156894/1‑122 (MQ=255)                                                                                                                        gttgCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCcg                >  1:126464/1‑150 (MQ=255)                                                                                                                                  ctcactt‑gtgCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAg      <  1:340750/144‑1 (MQ=255)                                                                                                                                   gAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc     <  2:243344/150‑1 (MQ=255)                                                                                                                                     gCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGa   <  2:419943/150‑1 (MQ=255)                                                                                                                                      ccT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGAACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCgca  >  1:190372/1‑148 (MQ=255)                                                                                                                                               |                                                                                                                                              CAGCAGCGTGGCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCT‑GTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAA  >  NC_002947/6000818‑6001100

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.