New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	342927 =	48 (0.870)	3 (0.060)	3/240	NT	6.6%	intergenic (+58/+74)	gabP‑I/PP_5439	gamma‑aminobutyrate permease/hypothetical protein
	?	NC_002947	342976 =	40 (0.770)					intergenic (+107/+25)	gabP‑I/PP_5439	gamma‑aminobutyrate permease/hypothetical protein

AGCGCGAGGCTGCCGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAGCGCCATCCAG  >  NC_002947/342832‑343123                                                                                                                                                 |                                                                                                                                                     aGCGCGAGGCTGCCGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAg                                                                                                                                                  <  5:353565/149‑1 (MQ=255)    gcgAGGCTGCCGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAg                                                                                                                                               >  5:343756/1‑149 (MQ=255)             ccGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCTGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTtat                                                                                                                                       <  5:346340/148‑1 (MQ=255)             ccGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTtata                                                                                                                                      <  6:343756/149‑1 (MQ=255)             ccGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTtata                                                                                                                                      <  6:44392/149‑1 (MQ=255)             ccGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTtata                                                                                                                                      >  2:123998/1‑149 (MQ=255)               gggcgggcGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATg                                                                                                                                    <  1:123998/149‑1 (MQ=255)                  cgggcggCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGcc                                                                                                                                 <  8:186342/149‑1 (MQ=255)                       ggcgCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGt                                                                                                                             >  6:203105/1‑148 (MQ=255)                              gACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCTCGCACTGTGAAGGGTGCGGCATTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACAACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGaa                                                                                                                     <  4:247414/149‑1 (MQ=255)                                cAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACt                                                                                                                   <  4:339364/149‑1 (MQ=255)                                                gctgAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTtgct                                                                                                   <  1:7611/148‑1 (MQ=255)                                                  tgAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTtgctgct                                                                                                >  4:185364/1‑149 (MQ=255)                                                    aaaTGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTtgctgctgc                                                                                              >  6:68235/1‑149 (MQ=255)                                                     caaaaaaaGGCCGCACCCTTCACAGGGCGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTGATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTgctgctgct                                                                                             >  2:229660/7‑149 (MQ=38)                                                     aaTGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCA‑GTtgctgctgc                                                                                              <  2:87194/148‑1 (MQ=255)                                                            aGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGccac                                                                                      <  5:68235/149‑1 (MQ=255)                                                                cgcgCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTg                                                                                           >  6:195225/1‑140 (MQ=255)                                                                cgcgCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTg                                                                                           <  5:195225/140‑1 (MQ=255)                                                                cgcgCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGt                                                                                  >  2:225165/1‑149 (MQ=255)                                                                 gcgcCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGtt                                                                                 >  8:295522/1‑149 (MQ=255)                                                                            aGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAgcggcg                                                                      <  3:185364/149‑1 (MQ=255)                                                                            aGGGCGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCTAGTTGCTGCTGCTTGGCCACCAGTTCGGAAgcggc                                                                       <  1:229660/149‑1 (MQ=255)                                                                                   ggCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTCCTTCTGAT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAgg                                                               >  6:41168/1‑149 (MQ=255)                                                                                       tttttttGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAg                                                                                                                                                  >  5:298839/1‑63 (MQ=255)                                                                                       tttttttGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAg                                                                                                                                                  <  6:298839/63‑1 (MQ=255)                                                                                                   ctgtggtgaacctgcgggcttgcccgcgaaagggccatcacaggccCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACtcat                                                >  1:60062‑M2/47‑148 (MQ=255)                                                                                                    tgtggtgaacctgcgggcttgcccgcgaaagggccatcacaggccCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTg                                                                                           <  4:3696‑M2/59‑1 (MQ=255)                                                                                                    tgtggtgaacctgcgggcttgcccgcgaaagggccatcacaggccCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTg                                                                                           >  3:3696‑M2/46‑104 (MQ=255)                                                                                                         tGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCActc                                           >  5:55225/1‑147 (MQ=255)                                                                                                         tGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCActc                                           <  6:55225/147‑1 (MQ=255)                                                                                                          ggCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGa                                                                             <  5:302122/112‑1 (MQ=255)                                                                                                          ggCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGa                                                                             >  6:302122/1‑112 (MQ=255)                                                                                                            cccTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGATCTCATCACTCTccag                                      >  3:207400/1‑149 (MQ=255)                                                                                                             ccTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTccagc                                     >  6:71288/1‑149 (MQ=255)                                                                                                               tttCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGCACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTccagc                                     >  5:222771/1‑147 (MQ=255)                                                                                                               tttCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTccagc                                     >  6:41924/1‑147 (MQ=255)                                                                                                                  cgcgGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTc                                                                                                              <  7:293298/72‑1 (MQ=255)                                                                                                                  cgcgGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTc                                                                                                              >  8:293298/1‑72 (MQ=255)                                                                                                                      ggCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGGCCTGGAACTCATCACTCTCCAGCCAGGCCAtg                            <  1:225165/149‑1 (MQ=255)                                                                                                                        cAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCAtggt                          >  4:124264/1‑149 (MQ=255)                                                                                                                         aaGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGCACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCAtggtg                         <  6:222771/149‑1 (MQ=255)                                                                                                                          aGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCAtggtgg                        <  7:295522/149‑1 (MQ=255)                                                                                                                              cGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGtctc                    >  7:93974/1‑149 (MQ=255)                                                                                                                                 aGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTc                 <  5:203105/149‑1 (MQ=255)                                                                                                                                   gTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGt               <  5:71288/149‑1 (MQ=255)                                                                                                                                       accacAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGTCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAgc           >  4:216836/1‑149 (MQ=255)                                                                                                                                        ccacAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAgcg          >  3:281452/1‑149 (MQ=255)                                                                                                                                        ccacAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAgcg          >  7:129853/1‑149 (MQ=255)                                                                                                                                        ccacAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTAGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATACCTCGCCAGCCCGGCCAGGGTGGGCTCTTCGGCAgcg          >  7:275953/1‑149 (MQ=255)                                                                                                                                           caggccCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAGCGCCa       >  5:290820‑M2/7‑149 (MQ=255)                                                                                                                                                cCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAGCGCCATCCAg  >  5:264779‑M2/2‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                     AGCGCGAGGCTGCCGGGCGGGCGGCGCTGGACAGCTGATCGGCGCTGGCTGAAATGAGAAGGCCGCGCCCTGTGAAGGGTGCGGCCTTTTTTTGTGGCCTGTGATGGCCCTTTCGCGGGCAAGCCCGCAGGTTCACCACAGGCCCGTAGGAGCGGGTTATATGGCCCTGTCAGCCGAACTGCTTCTGCT‑GTTGCTGCTGCTTGGCCACCAGTTCGGAAGCGGCGATATAGGCGTCCTGGAACTCATCACTCTCCAGCCAGGCCATGGTGGTCTCTTCGTCAGCGCCATCCAG  >  NC_002947/342832‑343123

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.