New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 2477107	3 (0.080)	3 (0.090)	3/250	1.5	24.1%	intergenic (+19/+130)	PP_2166/PP_2167	anti‑anti‑sigma factor/PhoD‑like phosphatase
	?	NC_002947	2477305 =	16 (0.460)					coding (1783/1851 nt)	PP_2167	PhoD‑like phosphatase

AATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACT  >  NC_002947/2476975‑2477238                                                                                                                                     |                                                                                                                                    gctgggacaggtgttttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCctct                                                                                                                                  >  1:287752‑M1/120‑136 (MQ=255) gctgggacaggtgttttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCctct                                                                                                                                  >  1:951998‑M1/120‑136 (MQ=255)           tggtgCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAA                                                                                                                        <  2:854858‑M1/136‑1 (MQ=255)              ttttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAAcc                                                                                                                     <  2:211833‑M1/30‑1 (MQ=255)              ttttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAAcc                                                                                                                     >  1:746365‑M1/107‑136 (MQ=255)                ttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCg                                                                                                                   >  1:82257‑M1/105‑136 (MQ=255)                ttttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCg                                                                                                                   >  1:576923‑M1/105‑136 (MQ=255)                cgcTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCG                                                                                                                   <  1:695239‑M1/136‑1 (MQ=255)                 tttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGc                                                                                                                  >  1:211833‑M1/104‑136 (MQ=255)                  ttgatgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCt                                                                                                                 >  1:512052‑M1/103‑136 (MQ=255)                      tgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTa                                                                                                             >  1:890971‑M1/99‑136 (MQ=255)                      tgaacaggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTa                                                                                                             >  1:937372‑M1/99‑136 (MQ=255)                           aggggcggccggcgcgggtgtaccagctggatgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTacgacg                                                                                                        >  1:275855‑M1/94‑136 (MQ=255)                                  gcgcACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTgcg                                                                                                 <  1:6783/136‑1 (MQ=255)                                    gcACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACacctgattggggg                                                                                               <  2:872636‑M1/136‑14 (MQ=255)                                    gcACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGcc                                                                                               <  1:709657/136‑1 (MQ=255)                                                         atgctggtgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCAc                                                                          >  1:967668‑M1/64‑136 (MQ=255)                                                         atgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCa                                                                           <  2:935902‑M1/72‑1 (MQ=255)                                                         atgctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCa                                                                           >  1:935902‑M1/64‑135 (MQ=255)                                                           aTGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggc                                                                        >  1:632173‑M1/1‑75 (MQ=255)                                                            tGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCAcccc                                                                       <  1:210847/136‑1 (MQ=255)                                                            ctggcgggggtgaggctacagagtttaaaaaccgggcgtagtgagattcagagtttttacAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCAcccc                                                                       >  1:302785‑M1/61‑136 (MQ=255)                                                              aCTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggcctt                                                                     <  2:198212‑M1/136‑65 (MQ=255)                                                                       gcgAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggct                                                            >  1:398667‑M1/1‑63 (MQ=255)                                                                                                        agcggagcTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACacctgattgggggtggacacacattggtgtttgg                                                                          >  2:539444‑M1/1‑55 (MQ=255)                                                                                                        agcggagcTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACacctgattgggggtggacacacattggtgtttgg                                                                          <  1:539444‑M1/89‑35 (MQ=255)                                                                                                                                 cggccgcccctgttcatcaaaaaacacctgtcccagcgcggcaccattccacagccgttccccggccttgctgtggctgggcgtacgcggcaccacctccatttctcggcgcttggtaaaccagttgagcggcgag  <  2:249540‑M1/136‑132 (MQ=255)                                                                                                                                 cggccgcccctgttcatcaaaaaacacctgtcccagcccggcaccattccacagccgttccccggccttgctgtggctgggcgtacgcggcaccacctccatttctcggcgcttggtaaaccagttgagcggcgag  <  2:774358‑M1/136‑132 (MQ=255)                                                                                                                                 CGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTgcg                                                                                                 <  2:661634‑M1/41‑1 (MQ=255)                                                                                                                                 CGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTgcg                                                                                                 >  1:661634‑M1/1‑41 (MQ=255)                                                                                                                                     |                                                                                                                                    AATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGACGGCCTGCGCCCAAACACCAATGTGTGTCCACCCCCAATCAGGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAGGCTGTAAAAACTCTGAATCTCACT  >  NC_002947/2476975‑2477238

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.