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

AATGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACT  >  NC_002947/3947810‑3948103                                                                                                                                                     |                                                                                                                                                   aaTGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGttct                                                                                                                                                  >  1:209662/1‑150 (MQ=255)    gcccgacgacgatcaactgctcacaggggaatagcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaacccaggggtcggcaaagcctgcaccgacgTCTTc                                                                                                                                                <  1:10‑M1/5‑1 (MQ=255)           cAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCAt                                                                                                                                        <  2:1786258/150‑1 (MQ=255)              gatcaactgctcacaggggaatagcggcgcccacacccctggccgagccagcctgcgacgcgcccctgagcggagccgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGc                                                                                                                                      <  1:1121757‑M1/15‑1 (MQ=255)              gCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGtt                                                                                                                                                    <  2:369403/135‑1 (MQ=255)              gCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGtt                                                                                                                                                    >  1:369403/1‑135 (MQ=255)               cccAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGccc                                                                                                                                    <  2:209662/150‑1 (MQ=255)               atcaactgctcacaggggaatagcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGcc                                                                                                                                     <  1:652372‑M1/16‑1 (MQ=255)                ccAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCg                                                                                                                                   >  2:1303433/1‑150 (MQ=255)                 cAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGc                                                                                                                                  >  2:582193/1‑150 (MQ=255)                  aactgctcacaggggaatagcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagttgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGc                                                                                                                                  >  2:1805649‑M1/132‑150 (MQ=255)                   ggCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTc                                                                                                                                <  2:1446636/150‑1 (MQ=255)                        ggggTGAAGGGGGCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCcaca                                                                                                                           <  2:1047956/149‑1 (MQ=255)                         gggTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAg                                                                                                                          <  1:971401/150‑1 (MQ=255)                         gggTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCGTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAg                                                                                                                          <  1:187368/150‑1 (MQ=255)                          acaggggaatagcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAg                                                                                                                          >  1:1399113‑M1/124‑150 (MQ=255)                                gaatagcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACAt                                                                                                                    <  1:1065246‑M1/33‑1 (MQ=255)                                 gtgtCGGGGGTGGCGCAGGCCAGGCG‑TCAGCGAATTTTCGTGAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGGAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATca                                                                                                                  <  2:152196/150‑1 (MQ=255)                                    tCGGGGGTGTCGCAGGCCAGGTGTCCCAGGCAGTCGAG‑CAGGCGCTCGTCGGTGGCTTGCAGAGGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCCTGTCCGCTCCCACAGGTACATCACAg                                                                                                               <  2:965889/150‑1 (MQ=255)                                     gcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAgg                                                                                                                         >  2:1178183‑M1/113‑140 (MQ=255)                                     gcggcgcccgcacccctggccgagccagcctgcgacgcgcccctgagcggagtcgaaggccatgccagaagcaatctatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAgg                                                                                                                         <  1:1178183‑M1/28‑1 (MQ=255)                                        gggTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATCTTCGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCt                                                                                                           <  1:1788785/150‑1 (MQ=255)                                         ggTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACACGTCtg                                                                                                          <  2:1269231/150‑1 (MQ=255)                                               gCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCt                                                                                                    <  1:1133076/150‑1 (MQ=255)                                                caggccaggcGTTCCAGGCAGGCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCCCAGGTACATCACAGGTCTGTGGGCTg                                                                                                   >  1:1072218/1‑150 (MQ=255)                                                        gcGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATc                                                                                           <  1:1303433/150‑1 (MQ=255)                                                           ttCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCtg                                                                                        <  1:582193/150‑1 (MQ=255)                                                              cgggCAGTCGGG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTgg                                                                                     <  2:534598/148‑1 (MQ=255)                                                                   tgcgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGc                                                                                 >  2:652372‑M1/83‑150 (MQ=255)                                                                    ggcGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCgg                                                                               <  2:1072218/148‑1 (MQ=255)                                                                     cgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCgg                                                                               >  2:1065246‑M1/81‑150 (MQ=255)                                                                     cgacgcgcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCgg                                                                               >  1:1427791‑M1/81‑150 (MQ=255)                                                                           gcccctgagcggagtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGc                                                                         >  1:833618‑M1/75‑150 (MQ=255)                                                                             ggCGGTCGTCAGGGGCTTGGGGGCGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGccc                                                                       <  2:918054/150‑1 (MQ=39)                                                                                  tCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTa                                                                                                                       <  1:785572/97‑1 (MQ=255)                                                                                  tCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTa                                                                                                                       >  2:785572/1‑97 (MQ=255)                                                                                  tCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCGCCCACAGGCACATCACAGGTCTGTGGGCTGCATACGCCCTGAAGGAGCTGGCATGCCCGCGac                                                                  >  2:124201/1‑149 (MQ=255)                                                                                            caggccatgccagaagcattcgatgtaaccccggattctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGc                                                                                 >  2:245307‑M1/58‑125 (MQ=255)                                                                                            caggccatgccagaagcattcgatgtaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGc                                                                                 <  1:245307‑M1/68‑1 (MQ=255)                                                                                                 catgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTgg                                                                                     >  2:710094‑M1/53‑116 (MQ=255)                                                                                                 catgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTgg                                                                                     <  1:710094‑M1/64‑1 (MQ=255)                                                                                                          tGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGGACAACACAGGTCTGTGGGCTGCGTACATCCTGGGGGAGCGGGCATGCCCGCGAAGACGTCGGTGGAGGATTTGCGGAt                                          >  1:752050/1‑150 (MQ=38)                                                                                                              ccAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTc                                        <  2:1732702/148‑1 (MQ=255)                                                                                                              ccAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCACACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTc                                        >  1:1732702/1‑148 (MQ=255)                                                                                                                         cccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCggg                                                                              <  2:1836965‑M1/71‑1 (MQ=255)                                                                                                                         cccggaatctgcaaagcctgcaccgacgTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCggg                                                                              >  1:1836965‑M1/29‑99 (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)                                                                                                                                                     |                                                                                                                                                   AATGCAGGGTCAGGCCCAGGCGCCGGGTGAAGGTGTCGGGGGTGTCGCAGGCCAGGCGTTCCAGGCAGTCGAG‑CAGGCGCTCGTCAGTGGCTTGCAGACGGGCCTGGGCCAGGAGGTCGCGGGGGTAGGCGGAAATTTTTGCTGGGTTCTTCGCGGGCATGCCCGCTCCCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACT  >  NC_002947/3947810‑3948103

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.