New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5534166 =	46 (0.870)	4 (0.080)	3/242	NT	7.2%	coding (309/1137 nt)	PP_4867	BraC‑like branched‑chain amino acid ABC transporter substrate‑binding protein
	?	NC_002947	5534223 =	59 (1.170)					coding (252/1137 nt)	PP_4867	BraC‑like branched‑chain amino acid ABC transporter substrate‑binding protein

CCCTGCTGGTCGTCACGGCCGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAGCGGCGTTGATCTTGT  >  NC_002947/5534020‑5534305                                                                                                                                                   |                                                                                                                                             cccTGCTGGTCGTCACGGCCGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGTGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTg                                                                                                                                            <  6:63769/149‑1 (MQ=255)      ctgGTCGTCACGGCCGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGcc                                                                                                                                         <  1:309307/147‑1 (MQ=255)            gtcACGGCCGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGACGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGc                                                                                                                                 >  4:111976/1‑149 (MQ=255)                    cGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCcaccac                                                                                                                                   >  4:320317/1‑139 (MQ=255)                    cGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCcaccac                                                                                                                                   <  3:320317/139‑1 (MQ=255)                               aaCATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATc                                                                                                              <  1:75641/149‑1 (MQ=255)                                    tacatgaaaggtgcgcaggcagcggctgacaagatcaacgccgctggtggcgtgaatggcgagaaaatcgtcctggtcaaaggcgatgacgcctgtgaaccgaagcaagccGTGGCCCACCACGCCAATCACCTTGTCCTGATCGAc                                                                                                           <  5:123886‑M1/36‑1 (MQ=255)                                       aCTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGc                                                                                                      >  3:10448/1‑149 (MQ=255)                                           aGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGtt                                                                                                  <  1:116405/149‑1 (MQ=255)                                           aGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGtt                                                                                                  >  6:118985/1‑149 (MQ=255)                                           aGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGtt                                                                                                  <  1:291749/149‑1 (MQ=255)                                            ggCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTg                                                                                                 <  3:279645/149‑1 (MQ=255)                                                          aCCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCGTCGTCATATACATCGGACGCCGGGATCGTGTTCGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGccac‑tgccacgga                                                                                  >  2:334498/1‑148 (MQ=255)                                                          aCCTGTGGGGTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTcc                                                                                                                   <  4:180569/117‑1 (MQ=255)                                                            gctgacaagatcaacgccgctggtggcgtgaatggcgagaaaatcgtcctggtcaaaggcgatgacgcctgtgaaccgaagcaagccGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGgctt                                                                                >  6:123886‑M1/88‑149 (MQ=255)                                                            cTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGgctt                                                                                <  3:53859/149‑1 (MQ=255)                                                            cTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGgctt                                                                                >  6:104876/1‑149 (MQ=255)                                                                  gTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCg                                                                          <  7:31230/149‑1 (MQ=255)                                                                    gatcaacgccgctggtggcgtgaatggcgagaaaatcgtcctggtcaaaggcgatgacgcctgtgaaccgaagcaagccGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGgctt                                                                                <  6:192508‑M1/62‑1 (MQ=255)                                                                    gatcaacgccgctggtggcgtgaatggcgagaaaatcgtcctggtcaaaggcgatgacgcctgtgaaccgaagcaagccGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGgctt                                                                                >  5:192508‑M1/80‑141 (MQ=255)                                                                      gtggAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGtt                                                                       >  8:194898/1‑148 (MQ=255)                                                                         gAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTcaca                                                                   <  5:104876/149‑1 (MQ=255)                                                                            ccTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGTTTCACAGGc                                                                <  5:118985/149‑1 (MQ=255)                                                                            ccTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGAAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGc                                                                >  1:275038/1‑149 (MQ=255)                                                                              tGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCg                                                               >  2:101722/1‑148 (MQ=255)                                                                                gggTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCg                                                               <  1:101722/146‑1 (MQ=255)                                                                                   tGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCg                                                         >  7:105047/1‑149 (MQ=255)                                                                                          gATCACTCCCGCCTCGTCATATACCTCGGACTCCGTGATCGTGTTTGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGtt                                                                       <  8:284016/128‑1 (MQ=255)                                                                                          gATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGtt                                                                       >  7:284016/1‑128 (MQ=255)                                                                                          gATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGa                                                  >  6:162323/1‑149 (MQ=255)                                                                                                      cTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGAttt                                      >  5:145834/1‑149 (MQ=255)                                                                                                          tCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCGAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTtctc                                  <  3:111976/149‑1 (MQ=255)                                                                                                            atatACCTCGGACGCCGGGATCTTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGc                                <  4:10448/149‑1 (MQ=255)                                                                                                                 ccTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCAtt                            >  6:220043/1‑148 (MQ=255)                                                                                                                  cTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGa                                            >  5:54567/1‑131 (MQ=255)                                                                                                                  cTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGa                                            <  6:54567/131‑1 (MQ=255)                                                                                                                  cTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCa                          >  5:227240/1‑149 (MQ=255)                                                                                                                  cTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCa                          >  8:261143/1‑149 (MQ=255)                                                                                                                  cTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCa                          <  2:275038/149‑1 (MQ=255)                                                                                                                     ggACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACg                        <  7:194898/148‑1 (MQ=255)                                                                                                                           cGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGccac                    >  7:227393/1‑146 (MQ=255)                                                                                                                           cGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGccac                    <  8:227393/146‑1 (MQ=255)                                                                                                                           cGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAg                 <  7:214692/149‑1 (MQ=255)                                                                                                                           cGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAg                 >  8:214692/1‑149 (MQ=255)                                                                                                                                  gtgtTGGAGGAACAGAAGTGGCCCACCACGCGAATCACCTTGTCCTGATCGACCAGGCGGGTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAGCGGCGt           <  1:334498/148‑1 (MQ=255)                                                                                                                                  gtgtTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAGCGGCGtt          <  7:261143/149‑1 (MQ=255)                                                                                                                                       ggaggaACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCtt                                                     >  7:125400/1‑101 (MQ=255)                                                                                                                                       ggaggaACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCtt                                                     <  8:125400/101‑1 (MQ=255)                                                                                                                                           gaACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAgcggc             >  3:71607/1‑137 (MQ=255)                                                                                                                                           gaACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAgcggc             <  4:71607/137‑1 (MQ=255)                                                                                                                                           gaACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAGCGGCGTTGATCTTGt  >  5:273252/1‑148 (MQ=255)                                                                                                                                              cAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGc                                                                >  2:14615/1‑83 (MQ=255)                                                                                                                                              cAGAAGTGGCCCACCAAGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCACAGGCCACGGCTTGCTTCGGTTCACAGGc                                                                <  1:14615/84‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                             CCCTGCTGGTCGTCACGGCCGCACATGCGGAACATGGCACTCAGGCCGCGCTCAGTGACCTGTGGGTTGGTGGAGCCTGGGGTGATGGCGATCACGCCCGCCTCGTCATATACCTCGGACGCCGGGATCGTGTTGGAGGAACAGAAGTGGCCCACCACGCCAATCACCTTGTCCTGATCGACCAGGCGGTTGGCCAC‑GGCCACGGCTTGCTTCGGTTCACAGGCGTCATCGCCTTTGACCAGGACGATTTTCTCGCCATTCACGCCACCAGCGGCGTTGATCTTGT  >  NC_002947/5534020‑5534305

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.