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

ACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCAACCATTCCGCTGCGGGTGCG  >  NC_002947/3029627‑3029919                                                                                                                                                    |                                                                                                                                                  cccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAg                                                                                                                                                  <  6:322816‑M1/62‑1 (MQ=255)  ccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAgg                                                                                                                                                 >  2:135520‑M1/87‑149 (MQ=255)  ccgcgccacctgagcctgctcttcggccgcactggcaatgaccagattgcgctcgttgatttcgccgatcgcactgtagatgccctCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAg                                                                                                                                                  >  5:322816‑M1/87‑148 (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                                                                                                <  8:261545/120‑1 (MQ=255)                                                                                cATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGc                                                                                                >  7:261545/1‑120 (MQ=255)                                                                                cATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTgg                                                                   >  3:284632/1‑149 (MQ=255)                                                                                 aTGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgc                                                                  <  6:363501/149‑1 (MQ=255)                                                                                  tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGt                                                                     >  8:342350/1‑145 (MQ=255)                                                                                  tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGt                                                                     <  7:342350/145‑1 (MQ=255)                                                                                  tGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgcg                                                                 >  2:431655/1‑149 (MQ=255)                                                                                   gCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGgcgc                                                                >  8:119970/1‑149 (MQ=255)                                                                                     cctccagcacttgccccgaggccagggtcacgtccagtgtcgactgggcgcggttggtgctggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCgg                                                              >  2:135520‑M2/64‑149 (MQ=255)                                                                                     aGGCCAGCACCAACCGCGCCCAGTCGACACTGGCCGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCgg                                                              >  2:247851/1‑149 (MQ=255)                                                                                      ctccagcacttgccccgaggccagggtcacgtccagtgtcgactgggcgcggttggtgctggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCggg                                                             <  6:322816‑M2/87‑1 (MQ=255)                                                                                      ctccagcacttgccccgaggccagggtcacgtccagtgtcgactgggcgcggttggtgctggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCgg                                                              >  5:322816‑M2/63‑148 (MQ=255)                                                                                       gCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGa                                                            <  3:79549/149‑1 (MQ=255)                                                                                        CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa                                                           >  8:179348‑M1/1‑149 (MQ=255)                                                                                        CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa                                                           >  5:459‑M1/1‑149 (MQ=255)                                                                                        CCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGaa                                                           >  4:243621‑M1/1‑149 (MQ=255)                                                                                         cagcacttgccccgaggccagggtcacgtccagtgtcgactgggcgcggttggtgctggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAg                                                          >  1:132704‑M2/60‑149 (MQ=255)                                                                                           GCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAg                                                          <  6:364681‑M1/147‑1 (MQ=255)                                                                                               cAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAAc                                                                                                                    >  7:211676/1‑85 (MQ=255)                                                                                               cAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAAc                                                                                                                    <  8:211676/85‑1 (MQ=255)                                                                                               cAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGAcc                                                    <  6:399304/149‑1 (MQ=255)                                                                                               cAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGAcc                                                    <  5:364681/149‑1 (MQ=255)                                                                                                 aCCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCg                                                   >  5:65533/1‑148 (MQ=255)                                                                                                                             ccTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCa                      <  8:191404/149‑1 (MQ=255)                                                                                                                             ccTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCAGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTCCTGAACATCCGCGAACTGTcc                       >  5:366487/1‑148 (MQ=255)                                                                                                                              cTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTATACCGCAACTTGCTGAACATCCGCGAACTGTCCaa                     >  4:157017/1‑149 (MQ=255)                                                                                                                                               gctggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCAACCATTCCGCTGCGGGTg    >  7:13270‑M2/6‑149 (MQ=255)                                                                                                                                                 tggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCAACCATTCCGCTGCGGGTgcg  >  2:129364‑M2/4‑149 (MQ=255)                                                                                                                                                  ggAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCAACCATTCCGCTGCGGGTgcg  >  2:220385‑M2/3‑148 (MQ=255)                                                                                                                                                    |                                                                                                                                                  ACCGCACGCAACAGTCGACCCAGGAAATCGAGCAGATGATCGGCAGCGTGCAGGCGGGGACCGAAGCTGCGGTGGCTTCCATGCAGGCCAGCACCAACCGCGCCCAGTCGACACTGGACGTGACCCTGGCCTCGGGGCAAGTGCTGGAGGGCATCTACAGTGCGATCGGCGAAATCAACGAGCGCAATCTGGTCATTGCCAGTGCGGCCGAAGAGCAGGCTCAGGTGGCGCGGGAAGTAGACCGCAACTTGCTGAACATCCGCGAACTGTCCAACCATTCCGCTGCGGGTGCG  >  NC_002947/3029627‑3029919

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.