New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4039105	47 (1.040)	3 (0.070)	3/242	NT	6.3%	intergenic (+11/‑83)	PP_3559/PP_3560	glycine betaine ABC transporter permease/LysR family transcriptional regulator
	?	NC_002947	= 4039142	44 (1.000)					intergenic (+48/‑46)	PP_3559/PP_3560	glycine betaine ABC transporter permease/LysR family transcriptional regulator

CTTGAATGTTGGCCAAGGGATGGAGGCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTCAGCC  >  NC_002947/4038995‑4039287                                                                                                                                                    |                                                                                                                                                  cTTGAATGTTGGCCAAGGGATGGAGGCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCACCCTTGTGCTACGAGAGGGCCGGgc                                                                                                                                                 <  2:1183607‑M2/150‑3 (MQ=255)      aTGTTGGCCAAGGGATGGAGGCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTGTCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGAc                                                                                                                                            >  2:973847/1‑150 (MQ=255)                  ggATGGAGGCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTg                                                                                                                                >  1:855842/1‑150 (MQ=255)                         ggCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCCGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTg                                                                                                                         >  2:665142/1‑150 (MQ=255)                             gggCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGaa                                                                                                                     >  1:1044291/1‑150 (MQ=255)                                   gaaaTTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGAc                                                                                                               <  2:456546/148‑1 (MQ=255)                                   gCAATTGTCGCCCTGGGCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGAc                                                                                                               <  2:155920/150‑1 (MQ=255)                                   gCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGAc                                                                                                               <  1:920749/150‑1 (MQ=255)                                     aaTTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCt                                                                                                             >  1:163570/1‑150 (MQ=255)                                          tCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGTCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAAcc                                                                                                        >  2:402873/1‑150 (MQ=255)                                          tCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAAcc                                                                                                        >  1:342534/1‑150 (MQ=255)                                            gCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGc                                                                                                      <  1:692742/150‑1 (MQ=255)                                             cccTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCa                                                                                                     >  1:280430/1‑150 (MQ=255)                                              ccTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCAt                                                                                                    >  1:520780/1‑150 (MQ=255)                                              ccTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTACGAGAGGGCCGGGCCTCACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCAt                                                                                                    <  1:1183607/150‑1 (MQ=255)                                                 ggCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCATcccggctgc                                                                                                 >  2:969236/1‑143 (MQ=255)                                                    cATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGACCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCt                                                                                              >  2:334068/1‑150 (MQ=255)                                                    cATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCGGAGCCGTATCGGCAAGGCCTGCAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGAAAATAGTCCTCGTTCAGTTGAGAACCGGGCCTCAATCGAATGTGCCt                                                                                              >  2:499118/1‑150 (MQ=255)                                                         tGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAg                                                                                         <  2:1044291/150‑1 (MQ=255)                                                           aTCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTGTCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGcc                                                                                       <  1:973847/150‑1 (MQ=255)                                                            tCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGccc                                                                                      >  2:1156299/1‑150 (MQ=255)                                                             caaCCGGATCAACCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCt                                                                                     <  1:499118/148‑1 (MQ=255)                                                              gACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTg                                                                                    >  2:1130411/1‑150 (MQ=255)                                                               acgggATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTgc                                                                                   >  1:1205289/4‑150 (MQ=255)                                                                 cGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTgcgc                                                                                 >  2:361872/1‑150 (MQ=255)                                                                     tCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCt                                                                             >  1:899674/1‑150 (MQ=255)                                                                       aGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTg                                                                           <  2:182762/150‑1 (MQ=255)                                                                        gCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTgg                                                                          >  1:321566/1‑150 (MQ=255)                                                                         ccAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCtt                                                                            >  1:171472/1‑147 (MQ=255)                                                                         ccAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCtt                                                                            <  2:171472/147‑1 (MQ=255)                                                                         ccAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGt                                                                         <  2:321566/150‑1 (MQ=255)                                                                                  tGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTg                                                                           >  1:1066881/1‑139 (MQ=255)                                                                                  tGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTg                                                                           <  2:1066881/139‑1 (MQ=255)                                                                                              tCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCAc                                                    <  2:855842/150‑1 (MQ=255)                                                                                                gCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCt                                                  >  1:1191640/1‑150 (MQ=255)                                                                                                      ccGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGgccgatacggctcagcgactgctacgcccataggcctggctgatccggtcgatcaccatggccagggcgacaattgccagcccggcctccatcccttggccaa                                            <  1:568417‑M2/150‑104 (MQ=255)                                                                                                              gCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCgccgcc                                    <  1:361872/150‑1 (MQ=255)                                                                                                                aaGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGgccgatacggctcagcgactgctacgcccataggcctggctgatccggtcgatcaccatggccagggcgacaattgccagcccggcctccatcccttggccaacattcaag                                    <  1:359419‑M2/148‑112 (MQ=255)                                                                                                                aaGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGgccgatacggctcagcgactgctacgcccataggcctggctgatccggtcgatcaccatggccagggcgacaattgccagcccggcctccatcccttggccaacattcaag                                    >  2:359419‑M2/1‑37 (MQ=255)                                                                                                                        gAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCa                          >  1:803718/1‑150 (MQ=255)                                                                                                                          agcagcCTTGTGCTGCGCGGACGTCTGGCCGGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGc                        <  1:665142/150‑1 (MQ=255)                                                                                                                               ccTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCATGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCAc                   >  1:130537/1‑150 (MQ=255)                                                                                                                               ccTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCAc                   <  1:229999/150‑1 (MQ=255)                                                                                                                                     gctgcGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTc             <  2:573468/150‑1 (MQ=255)                                                                                                                                           agagGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAATCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGt       <  2:342534/150‑1 (MQ=255)                                                                                                                                            tagGTCCGGGCCGGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTc      <  2:130537/149‑1 (MQ=255)                                                                                                                                            aagGACCGGGCCTTACAATACTCTTCTCTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGCCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTc      <  2:130104/149‑1 (MQ=255)                                                                                                                                             agGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTCa     <  2:121388/150‑1 (MQ=255)                                                                                                                                               ggccgggccTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTCAGc   <  2:280430/150‑1 (MQ=255)                                                                                                                                                gccgggccTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTCAGcc  >  1:311835/1‑150 (MQ=255)                                                                                                                                                    |                                                                                                                                                  CTTGAATGTTGGCCAAGGGATGGAGGCCGGGCTGGCAATTGTCGCCCTGGCCATGGTGATCGACCGGATCAGCCAGGCCTATGGGCGTAGCAGTCGCTGAGCCGTATCGGCAAGGCCTGGAAGCAGCCTTGTGCTGCGAGAGGGCCGGGCCTGACAATACGCCTCTGTCAGCTGAGAACCGGACCTCAACCGCATGTCCCTGAAAGCCCTGCGCACCTTGGTGACCATCGCCCGCCACGGCACCTTTGCCCGCGCCGCCGACCTGCTCAGCCTCACCCCCTCGGCGGTCAGCC  >  NC_002947/4038995‑4039287

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.