New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6000959 =	22 (1.690)	4 (0.390)	4/214	0.9	20.9%	intergenic (+10/+99)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase
	?	NC_002947	6001053 =	13 (1.280)					intergenic (+104/+5)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase

TGGCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCG  >  NC_002947/6000826‑6001106                                                                                                                                      |                                                                                                                                                    gggCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTaa                                                                                                                                     >  1:197802/2‑150 (MQ=255)         tGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGGAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACCAGTGATTGTGTGCCGGCCTCTTCGCGGGTAAACCCGCTc                                                                                                                             >  2:182202/1‑150 (MQ=255)          gCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTcc                                                                                                                            <  1:228088/150‑1 (MQ=255)           cAGACGGCGTCGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTcg                                                                                                                                            <  2:299951/133‑1 (MQ=255)           cAGACGGCGTCGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTcg                                                                                                                                            >  1:299951/1‑133 (MQ=255)             gACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTAc                                                                                                                         >  1:193051/1‑150 (MQ=255)                ggCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGACGTTGTTGTTGTAGAAGCCGGGTTGAATAAAGACGGGCGGCTTCGTGCGGTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCCCGGGTAATCCTGCTCCTACAag                                                                                                                      >  2:41992/1‑150 (MQ=255)                  cGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCGTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAagta                                                                                                                    <  1:125695/150‑1 (MQ=255)                                         cggcggCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCtgtg                                                                                             <  1:270310/150‑1 (MQ=255)                                            cggcAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTAGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTgtggtg                                                                                          <  2:235112/150‑1 (MQ=255)                                                                     tgCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCAGCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCcgc                                                                 <  1:41992/150‑1 (MQ=255)                                                                                   tttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCa                                                       >  1:198481‑M1/52‑146 (MQ=255)                                                                                   tttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCa                                                       <  2:198481‑M1/95‑1 (MQ=255)                                                                                          agaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCgg                                                                           >  2:47883/1‑119 (MQ=255)                                                                                          agaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCgg                                                                           <  1:47883/119‑1 (MQ=255)                                                                                              gggTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTacaacacaa                                        <  1:34767/150‑1 (MQ=255)                                                                                                      gggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAAc                                                                                       >  1:3347‑M1/33‑95 (MQ=255)                                                                                                      gggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAAc                                                                                       <  2:3347‑M1/63‑1 (MQ=255)                                                                                                             ttggttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGcc                         >  1:315387/1‑150 (MQ=255)                                                                                                                gttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCcg                      >  1:274208/1‑150 (MQ=255)                                                                                                                    cacaAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGTATTAGATGGCTGTGGTGAACATGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTg                  <  1:7373/150‑1 (MQ=38)                                                                                                                    cacaAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTg                  <  2:315387/150‑1 (MQ=255)                                                                                                                     acaAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTTGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTgg                 <  1:182202/150‑1 (MQ=255)                                                                                                                           gAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc           <  2:274208/150‑1 (MQ=255)                                                                                                                              ccTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGaa        <  1:192861/150‑1 (MQ=255)                                                                                                                                    ccGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGACCCAGACGCACAGGTTTTTACCGCGCAGTGCCCAGTACTTACAACACAACCCTCAGTCACTGCCCCACGTGGTACAGCGAAAAACCg  <  2:193051/150‑1 (MQ=255)                                                                                                                                      |                                                                                                                                                    TGGCGAAGTGCAGACGGCGTTGAGCAAATTGCAGCGGTTCCGGCGGCAGAGCCGGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCG  >  NC_002947/6000826‑6001106

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.