New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3029714 =	43 (0.600)	4 (0.060)	4/254	NT	9.3%	coding (1367/1653 nt)	pcaY	aromatic acid chemoreceptor
	?	NC_002947	3029774 =	37 (0.550)					coding (1427/1653 nt)	pcaY	aromatic acid chemoreceptor

TGCCGGTGAGGCCGGGCGCGGCTTTGCGGTGGTGGCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAA  >  NC_002947/3029568‑3029862                                                                                                                                                   |                                                                                                                                                     cgcacccgcagcggaatggttggacagttcgcggatgttcagcaagttgcggtctacttcccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctcc                                                                                                                                                     >  2:220385‑M1/147‑148 (MQ=255) cgcacccgcagcggaatggttggacagttcgcggatgttcagcaagttgcggtctacttcccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCa                                                                                                                                                    >  2:129364‑M1/147‑149 (MQ=255)   cacccgcagcggaatggttggacagttcgcggatgttcagcaagttgcggtctacttcccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGc                                                                                                                                                  >  7:13270‑M1/145‑149 (MQ=255)                    ggCTTTGCGGTGGTGGCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCa                                                                                                                                                 >  7:214490/1‑133 (MQ=255)                    ggCTTTGCGGTGGTGGCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCa                                                                                                                                                 <  8:214490/133‑1 (MQ=255)                              tggtggCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGAc                                                                                                                       <  1:172636/149‑1 (MQ=255)                                gtggCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGt                                                                                                                     >  4:205861/1‑149 (MQ=255)                                       aTGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTg                                                                                                              <  8:291945/149‑1 (MQ=255)                                           ggTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCt                                                                                                          <  5:319222/149‑1 (MQ=255)                                                gcACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCgggg                                                                                                     <  3:387955/149‑1 (MQ=255)                                                gcACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCgggg                                                                                                     >  7:331763/1‑149 (MQ=255)                                                gcACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCgggg                                                                                                     >  3:243621/1‑149 (MQ=255)                                                   cacTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCaa                                                                                                  <  5:37827/149‑1 (MQ=255)                                                    acTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAg                                                                                                 >  6:175549/1‑149 (MQ=255)                                                         cttcccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTg                                                                                            >  1:132704‑M1/91‑149 (MQ=255)                                                         ccTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTg                                                                                            >  1:397736/1‑149 (MQ=255)                                                            cccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAg                                                                                         <  6:322816‑M1/62‑1 (MQ=255)                                                             ccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAgg                                                                                        >  2:135520‑M1/87‑149 (MQ=255)                                                             ccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAg                                                                                         >  5:322816‑M1/87‑148 (MQ=255)                                                             ccGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGcc                                                                                                           >  3:343535/1‑130 (MQ=255)                                                             ccGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGcc                                                                                                           <  4:343535/130‑1 (MQ=255)                                                             ccGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAgg                                                                                        <  1:174088/149‑1 (MQ=255)                                                             ccGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAgg                                                                                        <  5:175549/149‑1 (MQ=255)                                                               gcacgcaACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGc                                                                                      <  7:261267/149‑1 (MQ=255)                                                                     aaCAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGGCACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTa                                                                                 >  8:8573/1‑148 (MQ=255)                                                                      actgTCGACCCAGCACATCGAGCATCTGATCGGCAGCGTGCAGGCGGGGAGCGAAGATGCGTTGGATTCGATGCAGGCCAGCACCAACCGCGGCCATTAGACACTGGACGTGACCCTGGCCTGGGGTCAAGTGCTGGAGGGCATCTACa                                                                               <  8:377764/146‑1 (MQ=255)                                                                         gTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTg                                                                            >  6:459/1‑149 (MQ=255)                                                                                 aGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGc                                                                    >  8:132918/1‑149 (MQ=255)                                                                                    aaaTCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGaa                                                                 <  7:43445/149‑1 (MQ=255)                                                                                         gAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCaa                                                            <  2:397736/149‑1 (MQ=255)                                                                                         gAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCa                                                             <  1:311757/148‑1 (MQ=255)                                                                                          aGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAAc                                                           <  8:232719/149‑1 (MQ=255)                                                                                                 gatCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAgcgc                                                     >  1:152364/1‑148 (MQ=255)                                                                                                  atCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCaa                                                   >  7:179348/1‑149 (MQ=255)                                                                                                   tCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGa                                                         <  8:68002/142‑1 (MQ=255)                                                                                                   tCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAgagaacg                                                  >  7:68002/1‑143 (MQ=255)                                                                                                                   ggggACCGAAGCTGCTGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACACTGGCCTCGGGTCAAGTTCTGGAGGGCATCTACAGTGCGATCg                                                                      <  5:183449/113‑1 (MQ=255)                                                                                                                   ggggACCGAAGCTGCTGTGGCTTCCATGAAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCg                                                                      >  6:183449/1‑113 (MQ=255)                                                                                                                   ggggACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTg                                  >  2:178217/1‑149 (MQ=255)                                                                                                                           aaGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGaa                          <  7:132918/149‑1 (MQ=255)                                                                                                                              cTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGTCACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAagag                       <  7:8573/149‑1 (MQ=255)                                                                                                                                  ggTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAgg                   <  8:331763/149‑1 (MQ=255)                                                                                                                                      gCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCt                 >  7:191404/1‑147 (MQ=255)                                                                                                                                           cATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGc                                       >  7:261545/1‑120 (MQ=255)                                                                                                                                           cATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGc                                       <  8:261545/120‑1 (MQ=255)                                                                                                                                           cATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTgg          >  3:284632/1‑149 (MQ=255)                                                                                                                                            aTGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgc         <  6:363501/149‑1 (MQ=255)                                                                                                                                             tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGt            <  7:342350/145‑1 (MQ=255)                                                                                                                                             tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGt            >  8:342350/1‑145 (MQ=255)                                                                                                                                             tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgcg        >  2:431655/1‑149 (MQ=255)                                                                                                                                              gCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgcgc       >  8:119970/1‑149 (MQ=255)                                                                                                                                                aGGCCAGCACCAACCGCGCCCAGTCGACACTGGCCGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCgg     >  2:247851/1‑149 (MQ=255)                                                                                                                                                  gCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGa   <  3:79549/149‑1 (MQ=255)                                                                                                                                                   CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa  >  8:179348‑M1/1‑149 (MQ=255)                                                                                                                                                   CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa  >  4:243621‑M1/1‑149 (MQ=255)                                                                                                                                                   CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa  >  5:459‑M1/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                     TGCCGGTGAGGCCGGGCGCGGCTTTGCGGTGGTGGCGGATGAGGTGCGCACACTGGCCTACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAA  >  NC_002947/3029568‑3029862

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.