New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3948058	36 (0.740)	3 (0.070)	3/244	NT	7.4%	intergenic (‑10/+51)	PP_3483/PP_3484	type II secretion system protein/two‑component system response regulator
	?	NC_002947	= 3948073	42 (0.920)					intergenic (‑25/+36)	PP_3483/PP_3484	type II secretion system protein/two‑component system response regulator

CCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAGGGGGAAC  >  NC_002947/3947934‑3948214                                                                                                                                            |                                                                                                                                                ccACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCgtcgcaggc                                                                                                                                        <  7:203886‑M2/149‑10 (MQ=255)           aTCACAGGTCTGTGGGCTGCATTCATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCATGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGc                                                                                                                               <  8:79683/148‑1 (MQ=255)            tCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGc                                                                                                                               >  6:243406/1‑147 (MQ=255)                  gTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACGCGCCCCTGAGCGGAgtcgcaggccatgccagaagctgg                                                                                                                         <  2:61140‑M2/147‑25 (MQ=255)                             gCATACATCCTGTGGTAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGcgccgc                                                                                                           >  7:104812/1‑148 (MQ=255)                             gCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGcgccgc                                                                                                           >  4:270279/1‑148 (MQ=255)                               aTACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTACGGGGTTGCATCGCATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGATCGGCCA‑G‑GGGTGCGGGCGCAGCTAt                                                                                                        >  5:213752/1‑149 (MQ=255)                                   aTCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCgtcgca                                                                                                                                           >  6:163407‑M2/1‑106 (MQ=255)                                   aTCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCgtcgca                                                                                                                                           <  5:163407‑M2/112‑7 (MQ=255)                                     ccTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCt                                                                                                  >  4:162064/1‑149 (MQ=255)                                         tgGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCtgt                                                                                                >  4:144691/1‑147 (MQ=255)                                          gggAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑GCGGGTGCGGGCGCCGCTATTCCCCTGTGa                                                                                              <  1:175061/149‑1 (MQ=255)                                             aGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAg                                                                                          >  7:69911/1‑149 (MQ=255)                                               cGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGt                                                                                         <  8:104812/148‑1 (MQ=255)                                                      gCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCt                                                                                                  <  1:274696/132‑1 (MQ=255)                                                      gCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCt                                                                                                  >  2:274696/1‑132 (MQ=255)                                                        ccGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtcgtcgt                                                                               >  5:303285/1‑149 (MQ=255)                                                            gAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCggg                                                                           <  3:270279/149‑1 (MQ=255)                                                                    cGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCtggtg                                                                   >  4:45736/1‑149 (MQ=255)                                                                                 gCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtcgtcgt                                                                               <  1:13994/124‑1 (MQ=255)                                                                                 gCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGt                                                       >  7:160362/1‑148 (MQ=255)                                                                                 gCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTCGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtcgtcgt                                                                               >  2:13994/1‑124 (MQ=255)                                                                                  cAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGtt                                                      <  3:144691/148‑1 (MQ=255)                                                                                   aGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTAc                                                    <  6:303285/149‑1 (MQ=255)                                                                                         cGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTAcggcgg                                               <  8:69911/148‑1 (MQ=255)                                                                                          ggggTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTAcggcggcg                                             >  2:59733/1‑149 (MQ=255)                                                                                                 cATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGcc                                      <  8:160362/149‑1 (MQ=255)                                                                                                    cGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCaa                                    >  5:313649/1‑148 (MQ=255)                                                                                                       aTGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCAGG‑GGGTGCGGGAGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAacac                                 >  1:242575/1‑149 (MQ=255)                                                                                                       aTGCTTATGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGTGGCGGTCGGCCAACAcc                                <  8:203886/149‑1 (MQ=255)                                                                                                          cttattgCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCTTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAg                             <  6:213752/143‑1 (MQ=255)                                                                                                                 cATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCAt                      >  5:309137/1‑149 (MQ=255)                                                                                                                  aTGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATc                     <  3:45736/149‑1 (MQ=255)                                                                                                                      ccTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtc                                                                                    <  1:135573/82‑1 (MQ=255)                                                                                                                      ccTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGAtc                                                                                    >  2:135573/1‑82 (MQ=255)                                                                                                                      ccTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTAc                 <  4:106843/149‑1 (MQ=255)                                                                                                                       cTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTAc                 >  4:302389/1‑148 (MQ=255)                                                                                                                       cTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTAc                 >  4:297772/1‑148 (MQ=255)                                                                                                                        tGCGACTCCGCTCAGGGGCGCgtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgtcttc                                                                               >  3:6749‑M2/1‑21 (MQ=255)                                                                                                                        tGCGACTCCGCTCAGGGGCGCgtcgcaggccatgccagaagcattcgatgcaaccccggaatctgcaaagcctgcaccgacgtcttc                                                                               <  4:6749‑M2/87‑67 (MQ=255)                                                                                                                          cGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACt             <  5:197973/149‑1 (MQ=255)                                                                                                                              tCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAg         >  4:171608/1‑149 (MQ=255)                                                                                                                                cGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAggg       <  5:243406/149‑1 (MQ=255)                                                                                                                                cGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAgg        <  6:309137/148‑1 (MQ=255)                                                                                                                                 gCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAggg       <  3:239842/148‑1 (MQ=255)                                                                                                                                 gCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAggg       >  4:239842/1‑148 (MQ=255)                                                                                                                                   tCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAggggg     >  2:217254/1‑148 (MQ=255)                                                                                                                                     aGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAGGGGGAAc  >  4:268994/1‑149 (MQ=255)                                                                                                                                            |                                                                                                                                                CCACAGGTACATCACAGGTCTGTGGGCTGCATACATCCTGTGGGAGCGGGCATGCCCGCGAAGACGTCGGTGCAGGCTTTGCAGATTCCGGGGTTGCATCGAATGCTTCTGGCATGGCCTGCGACTCCGCTCAGGGGCGCGTCGCAGGCTGGCTCGGCCA‑G‑GGGTGCGGGCGCCGCTATTCCCCTGTGAGCAGTTGATCGTCGTCGGGCCCTGGTGGCTTGGCGCCGTTACGGCGGCGGTCGGCCAACACCCAGCTTCCATCGTACAACTGCAGGGGGAAC  >  NC_002947/3947934‑3948214

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