New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3947957 =	27 (0.360)	10 (0.170)	8/198	NT	33.9%	coding (136/1797 nt)	PP_3483	type II secretion system protein
	?	NC_002947	3948042 =	18 (0.310)					coding (51/1797 nt)	PP_3483	type II secretion system protein

TGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGC  >  NC_002947/3947914‑3948186                                                                                                                                 |                                                                                                                                                 tGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGGACAACACAGGTCTGTGGGCTGCGTACATCCTGGGGGAGCGGGCATGCCCGCGAAGACGTCGGTGGAGGATTTGCGGAt                                                                                                                             >  1:752050/1‑150 (MQ=38)     ccAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTc                                                                                                                           <  2:1732702/148‑1 (MQ=255)     ccAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCACACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTc                                                                                                                           >  1:1732702/1‑148 (MQ=255)                     gTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCGCCCACAGGTACATCACAAGTGGGTGGGCTGCATACATACTGGGGGAGCCGCCCTGGCCACGCAGCCGTCGGCGGAGGCACTGCAGGTGCAGGGGGTGCATCGAAGGc                                                                                                         >  1:885262/1‑150 (MQ=255)                            gAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTAAAACAGGTAAATCAACTCGCTGTGGACTGAATACCTCCTGGCGGCACCAGCATGCTCGTGAGGGTTTTTGTTTAGGGGTGGCAGATTCCGGGGTTGCATCGAATGCTTCTGGc                                                                                                  >  2:687493/1‑150 (MQ=255)                                         tcttcgtcGCGGGTATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACt                                                                                     <  2:1735181/148‑1 (MQ=255)                                         ggTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGGCt                                                                                     >  2:1121757/1‑150 (MQ=255)                                                 GCGCGCATGCCCGCTCCCACCGGTACCTCACGGGTTTGTGAGCTGCTTACATCCTGTGGTAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAg                                                                             >  1:124201‑M1/1‑150 (MQ=255)                                                     gcatgcccgctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGgc                                                                         >  1:833618‑M2/77‑150 (MQ=255)                                                       ATGCCCGCTCCCACAGGTACATCACAGGTCAGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGgcgc                                                                       <  2:1118284‑M1/150‑1 (MQ=255)                                                          cccgctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCggg                                                                                                                       >  1:1836965‑M2/72‑99 (MQ=255)                                                          cccgctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCggg                                                                                                                       <  2:1836965‑M2/28‑1 (MQ=255)                                                           ccgctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCg                                                                   >  1:1427791‑M2/71‑150 (MQ=255)                                                           ccgctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCg                                                                   >  2:1065246‑M2/71‑150 (MQ=255)                                                           CCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCg                                                                   <  1:1744872‑M1/150‑1 (MQ=255)                                                           CCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGCTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCg                                                                   <  2:6163‑M1/150‑1 (MQ=255)                                                            CGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGc                                                                  <  2:1170789‑M1/150‑1 (MQ=255)                                                             gctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCa                                                                 >  2:652372‑M2/69‑150 (MQ=255)                                                             gctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTACATCGAATGCTTCTGGCATGGCCTg                                                                                          <  1:245307‑M2/57‑1 (MQ=255)                                                             gctcccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGAATCCGGGGTTACATCGAATGCTTCTGGCATGGCCTg                                                                                          >  2:245307‑M2/69‑125 (MQ=255)                                                              CTCCCACGGGTACCTCACGGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAg                                                                >  2:752050‑M1/1‑150 (MQ=255)                                                                 ccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATg                                                                                               <  1:710094‑M2/52‑1 (MQ=255)                                                                 ccacaggatgtatgcagcccacagacctgtgatgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATg                                                                                               >  2:710094‑M2/65‑116 (MQ=255)                                                                 CCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAggct                                                             <  2:1370744‑M1/150‑1 (MQ=255)                                                                   ACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAggctgg                                                           <  2:332275‑M1/150‑1 (MQ=255)                                                                        tACAGCACGGGTCGGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCgg                                                      <  2:885262/150‑1 (MQ=255)                                                                            tCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCgg                                                                                                                        >  2:1129484/1‑80 (MQ=255)                                                                            tCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCgg                                                                                                                        <  1:1129484/80‑1 (MQ=255)                                                                            tCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAg                                                  >  2:1135660/1‑150 (MQ=255)                                                                                  gTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGc                                            >  2:87251/1‑150 (MQ=255)                                                                                  gTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGc                                            >  1:661778/1‑150 (MQ=255)                                                                                     tgtgGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCggg                                         <  2:661778/150‑1 (MQ=255)                                                                                       tgGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGgcg                                       >  2:1855944/1‑150 (MQ=255)                                                                                         ggCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAggc                                                              >  1:413489/1‑125 (MQ=255)                                                                                         ggCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAggc                                                              <  2:413489/125‑1 (MQ=255)                                                                                               aTACATCCTGTGGGAGCGGGCATGCCAGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTAtt                               >  1:530086/1‑150 (MQ=255)                                                                                                atgtacctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTc                              <  1:1065246‑M2/117‑1 (MQ=255)                                                                                                  cATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTccc                            <  1:1118284/150‑1 (MQ=255)                                                                                                   aTCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGc                                                                                         >  1:1795907/1‑88 (MQ=255)                                                                                                   aTCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGc                                                                                         <  2:1795907/88‑1 (MQ=255)                                                                                                     cctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGcgccgc                                   >  2:1178183‑M2/29‑140 (MQ=255)                                                                                                     cctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATAGATTGCTTCTGGCATGGCCTTCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGcgccgc                                   <  1:1178183‑M2/112‑1 (MQ=255)                                                                                                      ctgtgggagcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCtgt                        >  1:1399113‑M2/28‑150 (MQ=255)                                                                                                              gcgggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCAACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGtt                >  2:1805649‑M2/20‑150 (MQ=255)                                                                                                                 ggcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAt             <  1:652372‑M2/134‑1 (MQ=255)                                                                                                                  gcatgcccgcgaagaCGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGGCTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGTGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtc            <  1:1121757‑M2/135‑1 (MQ=255)                                                                                                                            gaagaCGTCGGTGCAGGCTTTGCCGACCCCTGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGc  <  1:10‑M2/145‑1 (MQ=255)                                                                                                                                 |                                                                                                                                                 TGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGGGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGC  >  NC_002947/3947914‑3948186

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