New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2295836 =	42 (0.710)	5 (0.090)	5/240	NT	8.0%	intergenic (+82/+51)	PP_5496/PP_2023	hypothetical protein/glutathione S‑transferase family protein
	?	NC_002947	4282152 =	75 (1.350)					coding (1078/1089 nt)	PP_3753	AraC family transcriptional regulator

CACCGAGCAGTACCTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAGCCGCCTCGGC  >  NC_002947/2295688‑2295970                                                                                                                                                     |                                                                                                                                       ccgagtgccttccaccgggcgttcaagaagtggaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgt                                                                                                                                        <  6:352386‑M1/1‑1 (MQ=255)   gagtgccttccaccgggcgttcaagaagtggaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggcggatggcaccggctctgccggtgTTc                                                                                                                                      <  3:273711‑M1/3‑1 (MQ=255)       gCAGTACCTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCgg                                                                                                                                  <  1:48727/149‑1 (MQ=255)       gCAGTACCTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCgg                                                                                                                                  <  6:351559/149‑1 (MQ=255)        ccttccaccgggcgttcaagaagtggaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgTTCGCgg                                                                                                                                  >  5:281934‑M1/142‑148 (MQ=255)        cAGTACCTGCGCCAGCGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGGCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCggg                                                                                                                                 <  5:286933/149‑1 (MQ=255)         cttccaccgggcgttcaagaagtggaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgTTCGCggg                                                                                                                                 <  7:79984‑M1/8‑1 (MQ=255)         cttccaccgggcgttcaagaagtggaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgTTCGCggg                                                                                                                                 <  3:231557‑M1/8‑1 (MQ=255)             ccTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGc                                                                                                                            >  8:361927/1‑149 (MQ=255)             ccTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTGGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGc                                                                                                                            <  7:361927/149‑1 (MQ=255)              cTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGcc                                                                                                                           >  7:180342/1‑149 (MQ=255)                 cgcCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGGGGGAGCGGGCAGGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGCTGCCCGCTTCGCGGGCATGccc                                                                                                                          <  7:241316/147‑1 (MQ=255)                  gcCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTTTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCCGATAGCGGGCAAGCCCGcg                                                                                                                       >  8:241258/1‑148 (MQ=38)                           ccAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACgg                                                                                                              >  7:295322/1‑149 (MQ=255)                           ccAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACg                                                                                                               >  2:369316/1‑148 (MQ=255)                            cAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCAGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGa                                                                                                             >  3:94701/1‑149 (MQ=255)                             aaTTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGAc                                                                                                            <  3:309288/149‑1 (MQ=255)                               tttCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCAGTGCCATCCACCGCGGTGCCCGCTTCGGGGGCATGCCCGCTCCCACACGGAccc                                                                                                          <  4:94701/149‑1 (MQ=255)                                 tCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCca                                                                                                                   <  7:252721/138‑1 (MQ=255)                                 tCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCca                                                                                                                   >  8:252721/1‑138 (MQ=255)                                 gaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgTTcgc                                                                                                                                    >  1:124584‑M1/117‑121 (MQ=255)                                 gaccgggcagagcccagggagctaccgggcgcggctggtcggcctgcgttctacctgtaggagcgggcatgcccgcgaagaaaccaccgcggtggatggcaccggctctgccggtgTTcgc                                                                                                                                    <  2:124584‑M1/5‑1 (MQ=255)                                  ccATGCGGCCCTGAGTGCCAAGAACCACCACTGATCTTGGTTGTGTGCGGTCCTTGGGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCCCCGCGGGGCCCGCTTCGCGGGCTTGCCCGCTCCCACACGGACCCAt                                                                                                        <  6:299455/148‑1 (MQ=37)                                    aTGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCAtgtg                                                                                                     >  4:301023/1‑149 (MQ=255)                                     tGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCAACCGGACCCAagtg                                                                                                     >  4:97015/1‑148 (MQ=255)                                            cTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTc                                                                                                                      <  6:351665/124‑1 (MQ=255)                                            cTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTc                                                                                                                      >  5:351665/1‑124 (MQ=255)                                                       gccccaccacTGATCTGGCTTGTGTGAGGTCCTTGGGGGAGCGGGCATGCCCGCTAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAg                                                                                  <  3:97015/146‑1 (MQ=255)                                                            accacTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCGTCGCGGGCATGGCCGCGCCCCCACGGCCCCCAGTGCCCCCCGATGTGTAATCAGCgggc                                                                             >  4:326521/1‑147 (MQ=25)                                                              cacTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTAGCCGGCATGCCCGCTCCCACACCGACCCATGTGCAGCCCGCTGTTTAATAAGCGGCCCa                                                                           >  8:11157/1‑149 (MQ=37)                                                                        gCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGcc                                                                   <  7:11157/147‑1 (MQ=255)                                                                             tgtgAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAAc                                                             <  3:301023/148‑1 (MQ=255)                                                                              gtgAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAg                                                           >  5:146478/1‑149 (MQ=255)                                                                               tgAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGc                                                          >  1:91483/1‑149 (MQ=255)                                                                                 aGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTc                                                        <  8:180342/149‑1 (MQ=255)                                                                                  ggTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTcc                                                       <  1:369316/149‑1 (MQ=255)                                                                                           gggAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAagccagc                                              <  8:295322/149‑1 (MQ=255)                                                                                            ggagcgggcatgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAagcca                                                >  6:158996‑M1/58‑146 (MQ=255)                                                                                            ggagcgggcatgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAagcca                                                <  5:158996‑M1/89‑1 (MQ=255)                                                                                             gAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCCATGTTTAATCAGCGGACCCTGCTTGCCTTGAACAGCTCCGAagccacgcc                                            >  4:297754/1‑145 (MQ=255)                                                                                                   gcatgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgTTCGCGGGCATGCCCCCTCACACACGGACCCATCTGCAGCACGATGATTAATCAGCGCCCCATGATTGACATGAACAGCTCCGAAGCCAGCCACCCCTc                                      <  6:13381‑M1/99‑1 (MQ=255)                                                                                                   gCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTc                                      >  3:98340/1‑149 (MQ=255)                                                                                                          cgcgAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCCTGCCCGCTCCCCCACGGACCCATGTGCAGCCCGATGGTTAATCCGCGGTCCATGAGTGCCTTGAACAGCTCCGCAGCCGGCCACCCCTccagccag                               >  3:35671/1‑149 (MQ=37)                                                                                                               acacGGGCTGAGCGGGTGCCTTCCACGGCGGTGCCCGCTTCGGGGGCATGCCCGCGCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCg                          <  1:179039/149‑1 (MQ=255)                                                                                                                 acCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTGCCACCCGGCCGCATGTGGGGCCCGATGTTTAATCAGCGGACCCGGGTTGCCTTGAGCGGCTCCGAAGCCAGCCCCCGCTCCAGCCAGCTCCGcg                        >  2:35635/1‑148 (MQ=25)                                                                                                                            gggTGCCATCCACCGCGGTGCCCGCTTCGCGGGAAGGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAACCAGCTCCGCACACGCGGATaa             <  7:241258/148‑1 (MQ=255)                                                                                                                             ggTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAg            <  3:297754/149‑1 (MQ=255)                                                                                                                               tGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAgcc          >  5:123406/1‑149 (MQ=255)                                                                                                                                gCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAgccg         >  1:123968/1‑149 (MQ=255)                                                                                                                                      cACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAGCCGCCTCgg   <  3:19841/149‑1 (MQ=255)                                                                                                                                       aCCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAGCCGCCTCGGc  <  2:123968/149‑1 (MQ=255)                                                                                                                                       aCCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAGCCGCCTCGGc  <  4:98340/149‑1 (MQ=255)                                                                                                                                           tctgccggtgTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGa                                                                              <  6:208595‑M1/59‑1 (MQ=255)                                                                                                                                           tctgccggtgTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGa                                                                              >  5:208595‑M1/11‑69 (MQ=255)                                                                                                                                                 ccGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCCCCCCGACAGCCAGCTCCg                          >  2:350364/1‑115 (MQ=255)                                                                                                                                                 ccGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCg                          <  1:350364/115‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                       CACCGAGCAGTACCTGCGCCAGAGCGCCAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAACACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCAGCTCCGCACACGCGGATAAGCCGCCTCGGC  >  NC_002947/2295688‑2295970

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.