New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5506677	38 (0.630)	4 (0.070)	4/246	NT	8.2%	intergenic (+136/‑63)	PP_4839/cycA	iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease
	?	NC_002947	= 5506760	54 (0.960)					coding (21/1407 nt)	cycA	D‑alanine/beta‑alanine/D‑serine/glycine permease

GAGCCTTGTGTTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATCCAGCTGATCGCCATCG  >  NC_002947/5506540‑5506824                                                                                                                                          |                                                                                                                                                    gAGCCTTGTGTTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTg                                                                                                                                          >  8:335918/1‑149 (MQ=255)        gtgtTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAAcgcg                                                                                                                                   >  7:275003/1‑149 (MQ=255)                    cTGGCCTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTtagcct                                                                                                                        <  7:335918/148‑1 (MQ=255)                        ccTCTTCGCGGGTAAACCCGCTCCTCCGAGGGCCCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGcc                                                                                                                                                  <  4:90765/118‑1 (MQ=255)                        ccTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGGGTTGTAGGAGCGGGTTTACCCGCGAAGCGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCTGAGTCGATCTGTCGCGGCCCGCTCTGGCACGCGCGTGTTAGCCTAGGCg                                                                                                                   >  1:259248/1‑149 (MQ=38)                        ccTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGcc                                                                                                                                                  >  3:90765/1‑118 (MQ=255)                         ctctTCGCGGGTAAACCCGCTCCTACGAGGGCCCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTgg                                                                                                                                         >  5:336524/1‑126 (MQ=255)                            ttCGCGGGTAAACCCGCTCCTACGAGGGGCCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTa                                                                                                               >  4:332329/1‑149 (MQ=255)                                    tAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGa                                                                                                        >  2:67351/1‑148 (MQ=255)                                     aaaCCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCGTCGCCGGCTCCCTCTGAc                                                                                                       >  6:244817/1‑148 (MQ=255)                                       aCCCGCTCCTACGAGAGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGAc                                                                                                       >  3:106245/1‑146 (MQ=255)                                       aCCCGCTCCTACGAGAGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGAc                                                                                                       >  3:111599/1‑146 (MQ=255)                                         ccGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACaag                                                                                                    >  4:137901/1‑147 (MQ=255)                                           gCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAagaaga                                                                                                >  3:101736/1‑149 (MQ=255)                                             tCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAAcgcgc                                                                                                                                  <  5:169434/113‑1 (MQ=255)                                             tCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAAcgcgc                                                                                                                                  >  6:169434/1‑113 (MQ=255)                                               cTACGAGGGACCGCGTTGTAGGTGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGc                                                                                            <  7:41302/149‑1 (MQ=255)                                               cTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTg                                                                                             >  4:182665/1‑148 (MQ=255)                                                 aCGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGTCTACCTCTGACAAGAAGACTGCAg                                                                                          >  7:205273/1‑149 (MQ=255)                                                  cGAGAGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCa                                                                                           <  4:111599/147‑1 (MQ=255)                                                  cGAGAGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCa                                                                                           <  4:106245/147‑1 (MQ=255)                                                     gggACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGACTACCTCTGACAAGAAGACTGCAGCCTa                                                                                      >  2:64759/1‑149 (MQ=255)                                                      ggACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCtatgggtgaggtttgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacac                                                                                     >  2:195769‑M1/1‑85 (MQ=255)                                                           gcgTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACg                                                                                 >  1:248050/1‑148 (MQ=255)                                                              ttGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCaaa                                                                             <  1:67351/149‑1 (MQ=255)                                                                gTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAAc                                                                            <  3:332329/148‑1 (MQ=255)                                                                 tAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCtatgggtgaggtttgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacacgcgcgttcca                                                                           >  8:288598‑M1/1‑74 (MQ=255)                                                                    gAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCAc                                                                       <  3:182665/149‑1 (MQ=255)                                                                               cccGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCtatgggtgaggtttgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacacgcgcgttccacatcggggcgcgac                                                             <  7:288598‑M1/148‑89 (MQ=255)                                                                                ccGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCGCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCACACCTCCCCCAGAgcgacag                                                           <  6:284368‑M2/149‑8 (MQ=255)                                                                                ccGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAgcga                                                              <  6:218436‑M2/146‑5 (MQ=255)                                                                                     aaGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGaa                                                      >  2:319363/1‑149 (MQ=255)                                                                                        agGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCg                                                   >  8:148156/1‑149 (MQ=255)                                                                                         ggCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCtatgggtgaggtttgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacacgcgcgttccagatcggggcgcgacagatcgactct                                                  <  1:195769‑M1/149‑100 (MQ=255)                                                                                           ccGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCAc                                                <  3:137901/149‑1 (MQ=255)                                                                                                      gAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTgcaacgcaa                                     >  5:63291/1‑149 (MQ=255)                                                                                                       aaaTGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCAGAGCGACAGATGAACCGCACCTgcaacgcaac                                    >  8:245147/1‑149 (MQ=255)                                                                                                        aaTGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAAcc                                   <  7:148156/149‑1 (MQ=255)                                                                                                                gCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCa                                                 >  7:347928/1‑127 (MQ=255)                                                                                                                gCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCa                                                 <  8:347928/127‑1 (MQ=255)                                                                                                                gCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGAGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAAc                           >  5:278818/1‑149 (MQ=255)                                                                                                                          cAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATcc                 <  1:319363/149‑1 (MQ=255)                                                                                                                           agagTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAgcgacagatcgactctgcattttcggctcagcatttcgcctgtaccggcc                <  1:195769‑M2/149‑51 (MQ=255)                                                                                                                           agagTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATc                  >  1:349406/1‑147 (MQ=255)                                                                                                                                cGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATCCAGCTGa           >  1:228756/1‑149 (MQ=255)                                                                                                                                  aTCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCACCCTGACCAACCGCCACATCCAGCTGATc         >  4:190159/1‑149 (MQ=255)                                                                                                                                  aTCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTCCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATCCAGCTGATc         >  6:72255/1‑149 (MQ=255)                                                                                                                                    cTGTCGCtctgggggaggtgtgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacacgcgcgttccagatcgcggcgcgacagatcgactctgcattttcggctcagcatttcgcctgtaccggcctcttcgcgg       <  6:284368‑M1/149‑143 (MQ=255)                                                                                                                                      gTCGCGCCCCGATGTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAgcgacagatcgactctgcattttcggctcagcatttcgcctgtaccggcctcttcgcggg      <  7:288598‑M2/148‑61 (MQ=255)                                                                                                                                       tCGCtatgggtgaggtttgcgtcataggctgcagtcttcttgtcagaggtagccggctaggctaacacgcgcgttccagatcggggcgcgacagatcgactctgcattttcggctcagcatttcgcctgtaccggcctcttcgcgg       <  6:218436‑M1/146‑143 (MQ=255)                                                                                                                                       tCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACGTGCAACGCAACCTGACCAACCGCCACATCCAGCTGAt          <  8:205273/143‑1 (MQ=255)                                                                                                                                         gcgcCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACAGCCACATCCAGCTGATCGCCATcg  >  5:339926/1‑149 (MQ=255)                                                                                                                                          |                                                                                                                                                    GAGCCTTGTGTTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACGAGGGACCGCGTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACAGGCGAAATGCTGAGCCGAAAATGCAGAGTCGATCTGTCGCGCCCCGATCTGGAACGCGCGTGTTAGCCTAGCCGGCTACCTCTGACAAGAAGACTGCAGCCTATGACGCAAACCTCACCCATAGCGACAGATGAACCGCACCTGCAACGCAACCTGACCAACCGCCACATCCAGCTGATCGCCATCG  >  NC_002947/5506540‑5506824

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.