New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4461580	52 (0.800)	3 (0.050)	3/248	NT	6.2%	coding (68/2028 nt)	PP_3955	permease
	?	NC_002947	= 4461605	42 (0.690)					coding (93/2028 nt)	PP_3955	permease

AGGAGAAAAACCTGCTCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTGGGCCTTGCGGGAA  >  NC_002947/4461463‑4461753                                                                                                                                               |                                                                                                                                                     aGGAGAAAAACCTGCTCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCgccacg                                                                                                                                                <  6:61143‑M2/149‑7 (MQ=255)    agaAAAACCTGCTCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCAcggcg                                                                                                                                             <  8:35098/149‑1 (MQ=255)        aaaCCTGCTCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCt                                                                                                                                         <  3:124211/149‑1 (MQ=255)                tCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCt                                                                                                                                  >  3:334263/1‑148 (MQ=255)                 ccccTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGa                                                                                                                                <  1:63203/149‑1 (MQ=255)                          aCATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAcc                                                                                                                        <  6:340169/148‑1 (MQ=255)                            aTTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCTCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCaa                                                                                                                     <  6:218304/149‑1 (MQ=255)                            aTTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAccc                                                                                                                       >  4:197004/1‑147 (MQ=255)                            aTTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTATTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAcc                                                                                                                        <  1:134551/146‑1 (MQ=255)                            aTTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTATTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAcc                                                                                                                        >  2:134551/1‑146 (MQ=255)                                    gCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGc                                                                                                              <  5:61143/148‑1 (MQ=255)                                     ccATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTa                                                                                                                  >  2:310309/1‑143 (MQ=255)                                     ccATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTATTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTa                                                                                                                  <  1:310309/143‑1 (MQ=255)                                                 ggaTGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTg                                                                                                <  8:72609/147‑1 (MQ=255)                                                  tATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTgg                                                                                               <  7:220553/149‑1 (MQ=255)                                                   aTGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTggg                                                                                              >  5:323514/1‑149 (MQ=255)                                                     gAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGt                                                                                            >  5:148368/1‑149 (MQ=255)                                                       gTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTc                                                                                          >  5:226888/1‑149 (MQ=255)                                                        tGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTcc                                                                                         >  3:379568/1‑149 (MQ=255)                                                          aTACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTg                                                                                       >  5:28788/1‑149 (MQ=255)                                                           tACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAc                                                                                                                         <  4:107889/114‑1 (MQ=255)                                                           tACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCAc                                                                                                                         >  3:107889/1‑114 (MQ=255)                                                               gcgcAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCt                                                                                  >  5:337208/1‑149 (MQ=255)                                                                   aaGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCtggtg                                                                              <  4:334263/149‑1 (MQ=255)                                                                   aaGGGCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTGTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTATTGCGTGCAATACACGTGGGGTTCCTGTTGCtggtg                                                                              <  1:266777/149‑1 (MQ=255)                                                                    aGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCtggtgg                                                                             <  6:323514/149‑1 (MQ=255)                                                                       tCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGgtggtg                                                                           >  7:328751/1‑148 (MQ=255)                                                                         ttCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTAc                                                                        >  5:138119/1‑149 (MQ=255)                                                                           cACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTAc                                                                        <  1:191143/147‑1 (MQ=255)                                                                           cACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCt                                                                      >  5:121370/1‑149 (MQ=255)                                                                                 aGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCGTTGGTCTTTTCGGTTTTCCAGATCACCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTa                                                                >  8:217834/1‑149 (MQ=255)                                                                                    aacGATCGCTGTCCTGCCGCGCTTTTTGCCGTGTCATTGTTCTTTTCGGTTTTCCAGATAGCCACTGCGGCCTTCCCCCTGATTTCCACCCAAGTTCTGCGTTCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTatt                                                              <  8:170049/146‑1 (MQ=255)                                                                                         tCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCg                                                        <  4:175556/149‑1 (MQ=255)                                                                                            cTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGt                                                                                                            <  1:148711/94‑1 (MQ=255)                                                                                            cTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGt                                                                                                            >  2:148711/1‑94 (MQ=255)                                                                                                      gcgcTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCg                                           <  6:148368/149‑1 (MQ=255)                                                                                                         cTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGCTTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGcc                                        <  5:300780/149‑1 (MQ=255)                                                                                                              tGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTgg                                    <  6:337208/148‑1 (MQ=255)                                                                                                              tGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTgg                                    <  6:138119/148‑1 (MQ=255)                                                                                                               gCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCgccacggcaaaaagcgcggcaggccagcgatcggtgctggcgtgaagaccttgcgcggtatcactcatacgctgctccatggctcaggaatgtcatcaggggagcaggtttttctc                                  <  5:368911‑M2/149‑117 (MQ=255)                                                                                                                ccGTGGCATTGGTCTATTCGGTTTTCCAGATCgccacggcaaaaagcgcggcaggccagcgatcggtgctggcgtgaagaccttgcgcggtatccctcatacgctgctccaaggctcaggaatgtcatcaggctagcaggtttttctc                                  <  8:193261‑M2/148‑117 (MQ=255)                                                                                                                  gTGGCATTGGTCTTTTCGGTTTTCCAGATCgccacggcaaaaagcgcggcaggccagcgatcggtgctggcgtgaagaccttgcgcggtatcactcatacgctgctccatggctcaggaatgtcatcaggggagcaggtttttctcctt                               >  6:368911‑M2/1‑30 (MQ=255)                                                                                                                       aTTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTg                          >  3:363897/1‑149 (MQ=255)                                                                                                                           gTCTTTTCGGTTTTCCAGATCGCCACCGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCATGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTAGCCTg                      >  8:383636/1‑149 (MQ=255)                                                                                                                           gTCTTTTCGGTTTTCCAGATCACCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCt                       <  7:217834/148‑1 (MQ=255)                                                                                                                                   ggTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTgg              <  6:226888/149‑1 (MQ=255)                                                                                                                                    gTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTggg             <  6:28788/149‑1 (MQ=255)                                                                                                                                       ttCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTGGGcc           <  8:328751/148‑1 (MQ=255)                                                                                                                                           aGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTGGGCCTTGCg      >  2:97739/1‑149 (MQ=255)                                                                                                                                               cGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTGGGCCTTGCGGGaa  >  3:389658/1‑149 (MQ=255)                                                                                                                                               |                                                                                                                                                     AGGAGAAAAACCTGCTCCCCTGATGACATTCCTGAGCCATGGAGCAGCGTATGAGTGATACCGCGCAAGGTCTTCACGCCAGCACCGATCGCTGGCCTGCCGCGCTTTTTGCCGTGGCATTGGTCTTTTCGGTTTTCCAGATCGCCACGGCGGCCTTCCCCCTGATTTCCACCCAAGTACTGCGTGCAATACACGTGGGGTTCCTGTTGCTGGTGGTGTACCTGAGCTATTCATTCGTTGGCCACCGTCGGCCGTGGCAACCCCTTGCCTGGCTGCTGGGCCTTGCGGGAA  >  NC_002947/4461463‑4461753

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.