New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3512284	59 (1.210)	3 (0.060)	3/254	NT	5.4%	coding (952/4158 nt)	PP_3108	rhs family protein
	?	NC_002947	= 3512314	48 (1.010)					coding (982/4158 nt)	PP_3108	rhs family protein

GGTGCTGCCCTGGGAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCACCCGCACGCCCGACGGCAC  >  NC_002947/3512166‑3512456                                                                                                                                                     |                                                                                                                                               ggTGCTGCCCTGGGAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAgg                                                                                                                                                >  4:216689/1‑149 (MQ=255)            gggAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTa                                                                                                                                      >  3:30478/1‑148 (MQ=255)             ggAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTa                                                                                                                                      <  1:5407/147‑1 (MQ=255)              gAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACAt                                                                                                                                   >  2:991/1‑149 (MQ=255)                 cAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACt                                                                                                                                       <  7:107568/142‑1 (MQ=255)                 cAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACt                                                                                                                                       >  8:107568/1‑142 (MQ=255)                 cAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGACACTACATCCt                                                                                                                                >  1:114243/1‑149 (MQ=255)                   gagCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTg                                                                                                                               >  6:47848/1‑148 (MQ=255)                    agCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCa                                                                                                                             <  5:215279/149‑1 (MQ=255)                     gCCTGCGCCGCCAGGGGGCATTCATCAACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGCGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAg                                                                                                                            <  8:292668/149‑1 (MQ=255)                           gccgccAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTc                                                                                                                      <  4:30478/149‑1 (MQ=255)                             cgccAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGa                                                                                                                    <  3:126976/149‑1 (MQ=255)                                         ttCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGAAACCGGGGCAGCGCATCTACAACCCGCAAGAGCATTTGTACCTTGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGttctt                                                                                                        <  5:213443/149‑1 (MQ=255)                                            aTCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGtgagtttc                                                                                                     >  1:263773/1‑142 (MQ=255)                                            aTCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTa                                                                                                     <  8:262422/149‑1 (MQ=255)                                                aCCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCCCCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACttt                                                                                                 >  6:44625/1‑149 (MQ=255)                                                 ccTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTATGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTg                                                                                                <  6:195182/149‑1 (MQ=255)                                                  cTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTgg                                                                                               <  2:250220/149‑1 (MQ=255)                                                  cTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTgg                                                                                               <  5:47848/149‑1 (MQ=255)                                                  cTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTgg                                                                                               <  3:216689/149‑1 (MQ=255)                                                   tCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGc                                                                                              >  3:270102/1‑149 (MQ=255)                                                       cGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAg                                                                                          >  6:174057/1‑149 (MQ=255)                                                         aCAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTg                                                                                        >  2:193569/1‑149 (MQ=255)                                                         aCAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGAAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTg                                                                                        >  2:55661/1‑149 (MQ=255)                                                            aCCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCa                                                                                     <  5:174057/149‑1 (MQ=255)                                                             ccAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGttctt                                                                                                        <  6:47474/129‑1 (MQ=255)                                                             ccAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGttctt                                                                                                        >  5:47474/1‑129 (MQ=255)                                                              cAGGGCCGCGAAGTCCCGTTCGTGCCCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGa                                                                                   >  5:40315/1‑149 (MQ=255)                                                                gggCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGaca                                                                                 <  1:55661/149‑1 (MQ=255)                                                                  gCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACAcc                                                                               <  5:44625/149‑1 (MQ=255)                                                                            cccGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCg                                                                        <  1:274409/146‑1 (MQ=255)                                                                            cccGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCg                                                                        >  2:274409/1‑146 (MQ=255)                                                                             ccGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGa                                                                                                                           <  3:197340/94‑1 (MQ=255)                                                                             ccGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGa                                                                                                                           >  4:197340/1‑94 (MQ=255)                                                                              cGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTg                                                                   >  6:294403/1‑149 (MQ=255)                                                                               gTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGc                                                                  <  4:270102/149‑1 (MQ=255)                                                                                   gTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTAGATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGacac                                                                                >  1:99543/1‑131 (MQ=255)                                                                                   gTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGacac                                                                                <  2:99543/131‑1 (MQ=255)                                                                                      aCCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGATGTGCCAGACACCAACACCGAAGTGCCGCTGCa                                                           <  1:193569/149‑1 (MQ=255)                                                                                      aCCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTg                                                             >  3:6862/1‑147 (MQ=255)                                                                                                 ggggCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCgag                                                 >  1:178043/1‑148 (MQ=255)                                                                                                          cATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCg                                       <  1:991/149‑1 (MQ=255)                                                                                                             cTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAacac                                                                          >  4:122145/1‑111 (MQ=255)                                                                                                             cTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAacac                                                                          <  3:122145/111‑1 (MQ=255)                                                                                                                 aaCCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGgcgggttgtagatgcgctgccccggttgcagggtcacgaacgggacttcgcggccctggttgtcggtgaggtagatgaatgccccctggcggcgcaggctctgctcccag                                  >  4:7060‑M2/1‑37 (MQ=255)                                                                                                                 aaCCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGgcgggttgtagatgcgctgccccggttgcagggtcacgaacgggacttcgcggccctggttgtcggtgaggtagatgaatgccccctggcggcgcaggctctgctcccag                                  <  3:7060‑M2/147‑111 (MQ=255)                                                                                                                  aCCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTc                               <  2:178043/149‑1 (MQ=255)                                                                                                                   cccGCACGAGCAGGTGTACCTGGTGTGCACCGAGGgcgggttgtagatgcgctgccccggttgcagggtcacgaacgggacttcgcggccctggttgtcggtgaggtagatgaatgccccctggcggctcaggctctgctcccaggg                                <  2:57227‑M2/147‑113 (MQ=255)                                                                                                                     cGCACGATCAGGTGTACCTGGTGTGCACTGAGGGCTGTCACTACATCCTGCAGACACTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCTGACACCAACAGCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTg                            <  2:114243/149‑1 (MQ=255)                                                                                                                      gCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGaa                                                                      >  8:42504/1‑106 (MQ=255)                                                                                                                             cAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCAc                    <  5:294403/149‑1 (MQ=255)                                                                                                                                           gtgCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCACCCGCACGCCCGACg      >  2:177757/1‑149 (MQ=255)                                                                                                                                              cACCGAGGGCGTTCACTACATCCTGCAGACCCTCGACACCCTGTTCTTCTACTTTGGCGAACTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCACCCGCACGCCCGACGGca   <  8:252078/149‑1 (MQ=255)                                                                                                                                               aCCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCACCCGCACGCCCGACGGcac  >  4:16107/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                               GGTGCTGCCCTGGGAGCAGAGCCTGCGCCGCCAGGGGGCATTCATCTACCTCACCGACAACCAGGGCCGCGAAGTCCCGTTCGTGACCCTGCAACCGGGGCAGCGCATCTACAACCCGCACGAGCAGGTGTACCTGGTGTGCACCGAGGGCGGTCACTACATCCTGCAGACCCTCGACAACCTGTTCTTCTACTTTGGCGAAGTGCCAGACACCAACACCGAAGTGCCGCTGCAGCGTATCGAGAACGTCCTCGGCCACTTCCTGCACTTCACCCGCACGCCCGACGGCAC  >  NC_002947/3512166‑3512456

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.