New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5758899 =	48 (0.890)	3 (0.060)	3/256	NT	6.6%	coding (33/438 nt)	PP_5051	hypothetical protein
	?	NC_002947	5758932 =	39 (0.750)					coding (15/474 nt)	trmL	tRNA (cytosine(34)‑2'‑O)‑methyltransferase TrmL

TCCTGCATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCTTCGAACTG  >  NC_002947/5758753‑5759046                                                                                                                                                   |                                                                                                                                                    tCCTGCATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATg                                                                                                                                                   >  4:153439/1‑149 (MQ=255)     gCATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCg                                                                                                                                               >  4:226504/1‑149 (MQ=255)      cATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCTGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGccc                                                                                                                                                <  7:174655/147‑1 (MQ=255)      cATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGccc                                                                                                                                                <  4:301310/147‑1 (MQ=255)         cACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCAt                                                                                                                                           >  8:129081/1‑149 (MQ=255)                     ctgcAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGttt                                                                                                                                 <  4:259306/147‑1 (MQ=255)                         aGTTCACGCTCGTCCGGCGTAGTCAGCCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCAACACCCGTGGGAAGGCCTTCGAACCCACGACCGGGTCAGGCGAAGAATCCCCGTCATCTTCACGATAGGAGcc                                                                                                                           >  1:82945/1‑149 (MQ=255)                          gTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCg                                                                                                                          >  1:76028/1‑149 (MQ=255)                           ttCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGt                                                                                                                         >  5:295214/1‑149 (MQ=255)                           ttCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGt                                                                                                                         <  3:153439/149‑1 (MQ=255)                           ttCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGt                                                                                                                         <  4:7063/149‑1 (MQ=255)                           ttCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCACGTCATCTTCACGTTTGGAGcc                                                                                                                           >  1:292020/1‑147 (MQ=255)                               cGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCAt                                                                                                                     <  6:276270/149‑1 (MQ=255)                                 agttcgaagctgatgggttcgatcaggtgcagggcgcagccgctgttggcgcatagacgaatgatgttgccggtattcggcggaatttctggttgaaaaaggatgacgtgaaacATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGt                                                                                                                   >  4:158493‑M1/115‑149 (MQ=255)                                                 aGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCtttt                                                                                                   >  5:173105/1‑149 (MQ=255)                                                 aGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCtttt                                                                                                   <  3:226504/149‑1 (MQ=255)                                                      atcaggtgcagggcgcagccgctgttggcgcatagacgaatgatgttgccggtattcggcggaatttctggttgaaaaaggatgacgtgaaacATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTc                                                                                                                <  4:152218‑M1/38‑1 (MQ=255)                                                      atcaggtgcagggcgcagccgctgttggcgcatagacgaatgatgttgccggtattcggcggaatttctggttgaaaaaggatgacgtgaaacATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTc                                                                                                                >  3:152218‑M1/94‑131 (MQ=255)                                                        ctatcatcAGCCCTACCATCAAGCCTACTATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGTGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCa                                                                                            <  8:247884/147‑1 (MQ=255)                                                                 gCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGATATTccg                                                                                   >  8:211945/1‑149 (MQ=255)                                                                 gCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTccg                                                                                   >  4:22106/1‑149 (MQ=255)                                                                        cATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATa                                                                            >  7:37774/1‑149 (MQ=255)                                                                          tCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTc                                                                                                                                       <  3:18638/88‑1 (MQ=255)                                                                          tCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTc                                                                                                                                       >  4:18638/1‑88 (MQ=255)                                                                              gCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGc                                                                       >  2:247812/1‑148 (MQ=255)                                                                                  acgaTCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAAca                                                                   >  7:220381/1‑148 (MQ=255)                                                                                     aTCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAAcatcat                                                               >  7:71627/1‑149 (MQ=255)                                                                                     aTCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAAcatcat                                                               <  4:320601/149‑1 (MQ=255)                                                                                       cGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTc                                                             >  2:63469/1‑149 (MQ=255)                                                                                        gCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTTCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTc                                                             <  2:292020/148‑1 (MQ=255)                                                                                        gCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTc                                                             <  6:173105/148‑1 (MQ=255)                                                                                         ccAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGt                                                           >  8:47508/1‑149 (MQ=255)                                                                                          cAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATTTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTc                                                          >  3:149182/1‑149 (MQ=255)                                                                                              gACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATg                                                      <  7:129081/149‑1 (MQ=255)                                                                                                   cATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGcc                                                  >  4:40448/1‑148 (MQ=255)                                                                                                   cATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCa                                                 <  8:115136/149‑1 (MQ=255)                                                                                                       aCCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAg                                             <  4:233821/149‑1 (MQ=255)                                                                                                         ccGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCg                                           >  4:259606/1‑149 (MQ=255)                                                                                                         ccGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCg                                           <  8:37774/149‑1 (MQ=255)                                                                                                           gTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGc                                         >  4:248617/1‑149 (MQ=255)                                                                                                           gTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGc                                         <  3:248617/149‑1 (MQ=255)                                                                                                               gAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTgcg                                     <  1:63469/149‑1 (MQ=255)                                                                                                                aaGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCAGTCATCTTCACGTTTGGAGACGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTgcgc                                    >  1:291524/1‑149 (MQ=255)                                                                                                                  ggCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGccc                                  <  1:247812/149‑1 (MQ=255)                                                                                                                     cTTCGATCTTACGTACGGTTCAGGGGTAGAATGCCCGTAATCTTCACGTTTTGAGCTGTGCATGTTTCACGTCATCCTTTTTCAAGCAGATATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCTTCTGCGCCCttc                               <  8:220381/149‑3 (MQ=255)                                                                                                                           aCGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGa                         <  2:76028/149‑1 (MQ=255)                                                                                                                                      gTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATTTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATc              <  4:149182/149‑1 (MQ=255)                                                                                                                                          aGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATACTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCt          >  1:89774/1‑149 (MQ=255)                                                                                                                                            gggTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCa                >  7:254729/1‑141 (MQ=255)                                                                                                                                            gggTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCa                <  8:254729/141‑1 (MQ=255)                                                                                                                                            gggTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCTTc        >  6:50882/1‑149 (MQ=255)                                                                                                                                            gggTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCTTc        <  3:22106/149‑1 (MQ=255)                                                                                                                                                  aaTGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCAGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCTTCGAACTg  >  1:336335/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                    TCCTGCATCACTTGCACCTGCTGCAGTTCACGCTCGTCCGGCGTAGTCAGGCGACCGATCATCAGCCCTACCATCAAGCCGACGATCGCCAACGACAGCATCACCCGTGGGAAGGCCTTCGAACGCACGTCCGGTTCAGGGGTAGAATGCCCGTCATCTTCACGTTTGGAGCCGTGCATGTTTCACGTCATCCTTTTTCAACCAGAAATTCCGCCGAATACCGGCAACATCATTCGTCTATGCGCCAACAGCGGCTGCGCCCTGCACCTGATCGAACCCATCAGCTTCGAACTG  >  NC_002947/5758753‑5759046

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.