New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 6000932	15 (0.240)	3 (0.060)	3/206	NT	20.3%	intergenic (+39/+70)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase
	?	NC_002947	= 6000966	12 (0.250)					intergenic (+73/+36)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase

GGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGA  >  NC_002947/6000823‑6001110                                                                                                                                                 |                                                                                                                                                 gtgagTCGTTGCTGTTGCAGAAGCCGGCTTCTATCAAGAAGGGGGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtag                                                                                                                                             >  1:336384‑M2/3‑144 (MQ=255) gggAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtag                                                                                                                                             <  8:299917‑M2/149‑6 (MQ=255) gggAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtag                                                                                                                                             >  5:292346‑M2/1‑144 (MQ=255)     gTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagc                                                                                                                                         >  8:225285‑M2/1‑140 (MQ=255)      tCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagc                                                                                                                                         >  4:173407‑M2/1‑139 (MQ=255)      gcgTTTTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagc                                                                                                                                         >  7:71076‑M2/2‑139 (MQ=255)       cggacagcgttctatgagtccggtttttcgctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCg                                                                                                                                        >  5:137520‑M1/75‑148 (MQ=255)        gttgttgttGCAGAAGCCGGCTTCTATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGGTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgg                                                                                                                                       >  3:12363‑M2/1‑137 (MQ=255)        gttgttgttGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgg                                                                                                                                       >  2:115319‑M2/1‑137 (MQ=255)        gttgttgttGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgg                                                                                                                                       >  7:299917‑M2/1‑137 (MQ=255)                           gCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCGTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGCGGGCTG‑TGGTCAACCTTTAGGAGCGGGTTTACCCGCGAAGAGGCCa                                                                                                                   <  8:195765/149‑1 (MQ=255)                                  tcaaGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGACCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACtt                                                                                                             >  1:86775/1‑148 (MQ=255)                                    gctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGc                                                                                                                                         <  3:364445‑M1/73‑1 (MQ=255)                                    gctgtaccacgcggggcagtgcctgagggttgtgttgtaagtactGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGc                                                                                                                                         >  4:364445‑M1/46‑118 (MQ=255)                                     tgaagGGTGGCTTCCTGTTTTGTTTGCACATGTTAGCCTGTGCCGGCCTATTCGCGGTTAAACGCGCTCCTTCTAGTATTGCAGCGCCTGAGAGGGGTG‑TGGTGAACGTGTAGGAGCGGGTTTACCCGGGAAGAGGCCAGTACTTacaa                                                                                                         <  8:204987/148‑1 (MQ=25)                                          cgTGGCTTCCTGCGTTGGTTCCACAAGTGAGCCTGTGCCGGCCTCTACGCGTGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTTAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTacaacacaa                                                                                                    <  5:70689/148‑1 (MQ=38)                                                ttCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTTAACCCGCTCCTTCATGTTGTGCACCGGCTGAGAGGGGTG‑TGGTGTACCTGTAGGAGCGGGTTTAGACGCGAAGAGGGCAGTACTTACCACCCAACACTcc                                                                                              >  5:185172/1‑148 (MQ=37)                                                            ttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTTAACCCCCGCCGAAAAATAGTGGCCCCCCGGAGCGGGGTG‑TGGTGGACCGGTTGGGGCGGGTTTACCCCCGAAGAGGGCCCGAATTAAAACACAACCCACAGGCACAGCCCcg                                                                                  >  4:131989/1‑149 (MQ=255)                                                                                       TTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACGGCGAAAAACCGGACTc                                                         >  2:86775‑M1/1‑147 (MQ=255)                                                                                       TTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCa                                                        <  7:364274‑M1/148‑1 (MQ=255)                                                                                            GGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGCGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACAAAACCCTCATGCACTGCCACGCGTGGTACAGCGAAAAAACGGACTAATAGAAc                                                  <  7:300775‑M1/149‑1 (MQ=255)                                                                                                  ACCCGCTCCTACAAGTAGTCCACCGCCTGAGAGGGCTG‑TGGTTAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTc                                            >  3:131989‑M1/1‑149 (MQ=255)                                                                                                   CCCGCTCCTACAAGTAGTGCACCGCGTTAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTcc                                           >  3:83594‑M1/1‑149 (MQ=255)                                                                                                   CCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAACGAAAAACCGGACTCATAGAACGCTGTcc                                           <  3:347731‑M1/149‑1 (MQ=255)                                                                                                    CCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCcgc                                                                                 <  1:279101‑M1/110‑1 (MQ=255)                                                                                                    CCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCcgc                                                                                 >  2:279101‑M1/1‑110 (MQ=255)                                                                                                     cGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgggtttacccgcgaagaggccggcacaggctcacttgtgcaaccaactcaggaagccacccttcttgattgaagccggcttctgcaacaacaacga                                         <  1:108436‑M2/149‑106 (MQ=255)                                                                                                      gCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgggtttacccgcgaagaggccggcacaggctcacttgtgcaaccaactcaggaagccacccttcttgattgaagccggcttctgcaacaacaac                                           >  6:1770‑M2/1‑43 (MQ=255)                                                                                                      gCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCtgtaggagcgggtttacccgcgaagaggccggcacaggctcacttgtgcaaccaactcaggaagccacccttcttgattgaagccggcttctgcaacaacaac                                           <  5:1770‑M2/146‑104 (MQ=255)                                                                                                          CTACAAGTAGTGCACCGCCTGAGAGGGCTGGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGc                                      <  1:28620‑M1/148‑1 (MQ=255)                                                                                                            ACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAg                                  <  3:167871‑M1/149‑1 (MQ=255)                                                                                                              AAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGc                                <  7:276152‑M1/149‑1 (MQ=255)                                                                                                              AAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGc                                <  8:349037‑M1/149‑1 (MQ=255)                                                                                                                       aCCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTcaca                       >  5:97882/1‑149 (MQ=255)                                                                                                                           ccTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGc                   >  1:322947/1‑149 (MQ=255)                                                                                                                                 agGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCAGCAGCGAAGGCGCGCTCACACCGCTCATCg             >  5:142391/1‑149 (MQ=255)                                                                                                                                   ggCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGc           <  6:142391/149‑1 (MQ=255)                                                                                                                                   ggCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGc           <  6:97882/149‑1 (MQ=255)                                                                                                                                           gtgAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACg    >  5:102024/1‑149 (MQ=255)                                                                                                                                            tgAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACg    >  4:336346/1‑148 (MQ=255)                                                                                                                                             gAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACgg   >  1:7857/1‑148 (MQ=255)                                                                                                                                              aaCCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGa  <  8:364274/148‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                 GGGAGTCGTTGTTGTTGCAGAAGCCGGCTTCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTG‑TGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGA  >  NC_002947/6000823‑6001110

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.