New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3951141	23 (0.250)	4 (0.060)	4/194	NT	14.6%	intergenic (‑61/+134)	PP_3486/PP_3487	cytochrome c/hypothetical protein
	?	NC_002947	= 3951201	29 (0.400)					intergenic (‑121/+74)	PP_3486/PP_3487	cytochrome c/hypothetical protein

GCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTGGGCAATCGCCGCTGGCGGTGCATCCGGGCG  >  NC_002947/3951055‑3951346                                                                                                                                                     |                                                                                                                                                    gCCAGGGCTGAGGTCGAAGTTGCCATGCCCAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCCCGAAAGGGCTGCGCAGCAGCCCCGGCCGGGGCCGCTCAAGCGCAGAAAGAGGCGAGCGCCGCGCGCTccc                                                                                                                                                  <  2:1064139‑M2/150‑4 (MQ=255)  ccAGGGCTCAGGCCGAAGTTGCCATGCCAAGCAAGTTCAG‑‑AAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTactt                                                                                                                                                 >  1:123288‑M2/1‑146 (MQ=255)    aGGGCTGAGGTCGAAGTTGCCATGCCAAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttc                                                                                                                                               >  2:986856‑M2/1‑144 (MQ=255)    aGGGCTGAGGTCGAAGTTGCCATGCCAAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttc                                                                                                                                               >  2:104674‑M2/1‑144 (MQ=255)        cTGAGGTCGAAGTTGCCATGCCAAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcga                                                                                                                                           >  1:492616‑M2/1‑140 (MQ=255)         tGAGGTCGAAGTTGCAATGCCAAGTACG‑‑AAGGTAAGACATATAGTAAGCCTTTTGGGAGCGTCCTGTCGTCGCGAAAGCGCTGCGCCGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgac                                                                                                                                          >  2:1330662‑M2/1‑139 (MQ=255)              gcgAAGTCGCCATGCCAAGCACG‑‑CAGGTAAGCCATAGCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCGGCGCAGCAGCCCCGGCAGTGGCAGCGCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaag                                                                                                                                     >  1:1064139‑M2/2‑134 (MQ=255)               cGAAGTTGCCATGCCAAGCACG‑‑CAGATAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaagg                                                                                                                                    >  1:2310992‑M2/1‑133 (MQ=255)                 aaGTTGCCATGCCAAGCTCG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGAAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaaggcc                                                                                                                                  >  1:707409‑M2/1‑131 (MQ=255)                                    g‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATg                                                                                                             >  1:1812161/1‑150 (MQ=255)                                                                   gAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCa                                                                                <  2:1812161/150‑1 (MQ=255)                                                                        gCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATa                                                                           >  2:1788117/1‑150 (MQ=255)                                                                        gCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATa                                                                           >  2:2244369/1‑150 (MQ=255)                                                                         ccTNGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATAc                                                                          >  2:1513317/1‑150 (MQ=255)                                                                           ttGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTGTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTc                                                                        >  1:156407/1‑150 (MQ=255)                                                                               gTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaaggccgctcccacagggcttgcgatatggcttacctgcgtgcttggcatggcaacttcgacctca                                                                      <  2:1314293‑M2/150‑80 (MQ=255)                                                                                         ggCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaaggccgctcccacagggcttgcgatatggcttacctgcgtgctt                                                                                           <  2:2199903‑M2/119‑59 (MQ=255)                                                                                         ggCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaaggccgctcccacagggcttgcgatatggcttacctgcgtgctt                                                                                           >  1:2199903‑M2/1‑61 (MQ=255)                                                                                         ggCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAACGTGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGc                                                          >  1:627312/1‑150 (MQ=255)                                                                                            tGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACACAAGCGG‑‑ATACCACCAACCACACTCCCCTAGGCGGCCCATTAGACTCACCGACCGGCCCGCGGc                                                       >  2:23989/1‑150 (MQ=255)                                                                                                cagcagCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTggg                                                   >  2:2166724/1‑150 (MQ=255)                                                                                                 agcagcCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGTTGCGCGCt                                                                                                                                                     <  2:2051880/53‑1 (MQ=255)                                                                                                 agcagcCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCt                                                                                                                                                     >  1:2051880/1‑53 (MQ=255)                                                                                                  gcagcCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTcctttcgcgacgcaaggccgctcccacagggcttgcgatatggcttacctgcgtgcttggcatggcaacttcgacctcagccctggccctggacctga                                                   >  1:1314293‑M2/1‑52 (MQ=255)                                                                                                  gcagcCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTc                                                 >  2:2165461/1‑150 (MQ=255)                                                                                                      ccccGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACa                                             >  2:808648/1‑150 (MQ=255)                                                                                                        ccGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCCGCGGCTGGGTCAACAGc                                           >  1:997226/1‑150 (MQ=255)                                                                                                        ccGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGc                                           >  1:2117687/1‑150 (MQ=255)                                                                                                         cGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCt                                          <  1:808648/150‑1 (MQ=255)                                                                                                                  cAGCTCAAGCGCAGAAAGAGGGGAGCACTGCGCGCTCCTTGCGCGACGCATGGCCGCTCACACAAAAGCGGACAAGCCACTTACTGGCATT‑‑TCATTCCGCCTATGATACTCACCGACCGGCCAGCGGCTGGGTCAACACCTGCATGCGCt                                 >  1:2388063/1‑150 (MQ=255)                                                                                                                      tCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑a                                                                                                               >  1:428358/1‑68 (MQ=255)                                                                                                                      tCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑a                                                                                                               <  2:428358/68‑1 (MQ=255)                                                                                                                              aGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCa                                                                       >  2:136921/1‑100 (MQ=255)                                                                                                                              aGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCa                                                                       <  1:136921/100‑1 (MQ=255)                                                                                                                               gAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCa                                                                                         <  2:149269/81‑1 (MQ=255)                                                                                                                               gAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCa                                                                                         >  1:149269/1‑81 (MQ=255)                                                                                                                               gAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGGCAACAGCTGCATGCGCTGGGCAATcgccgc                    >  1:1877679/1‑150 (MQ=255)                                                                                                                                  agagGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGc                                        <  2:1197991/127‑1 (MQ=255)                                                                                                                                  agagGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGc                                        >  1:1197991/1‑127 (MQ=255)                                                                                                                                      gggAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCacc                                                                     <  2:309702/94‑1 (MQ=255)                                                                                                                                      gggAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCacc                                                                     >  1:309702/1‑94 (MQ=255)                                                                                                                                              tGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTgg                               <  2:1572152/124‑1 (MQ=255)                                                                                                                                              tGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTgg                               >  1:1572152/1‑124 (MQ=255)                                                                                                                                               gcgcgcTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTGGGCAATCGCCGCTGGCGGTGCATCCggg    <  1:1513317/150‑1 (MQ=255)                                                                                                                                               ccgatcTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCTGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTGGGCCATCTCCGCTGGCGGTGCATCCggg    <  1:1035068/145‑1 (MQ=255)                                                                                                                                                 gcgcTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTGGGCAATCGCCGCTGGCGGTGCATCCGGGCg  >  2:2296800/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                    GCCAGGGCTGAGGTCGAAGTTGCCATGCCAAGCACG‑‑CAGGTAAGCCATATCGCAAGCCCTGTGGGAGCGGCCTTGCGTCGCGAAAGGGCTGCGCAGCAGCCCCGGCAGTGGCAGCTCAAGCGCAGAAAGAGGGGAGCGCTGCGCGCTCCTTTCGCGACGCAAGGCCGCTCCCACAAAAGCGG‑‑ATGCCACAGAGGCCAATTCCCCAGGCGGCCCATGATACTCACCGACCGGCCAGCGGCTGGGTCAACAGCTGCATGCGCTGGGCAATCGCCGCTGGCGGTGCATCCGGGCG  >  NC_002947/3951055‑3951346

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.