New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 2274147	32 (0.760)	6 (0.150)	5/246	NT	15.3%	coding (220/1041 nt)	PP_2004	AraC family transcriptional regulator
	?	NC_002947	= 2274179	36 (0.890)					coding (188/1041 nt)	PP_2004	AraC family transcriptional regulator

TCAAAGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCA  >  NC_002947/2273999‑2274290                                                                                                                                                     |                                                                                                                                                tCAAAGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAG                                                                                                                                                 >  3:178280‑M1/1‑149 (MQ=255)   aaaGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGa                                                                                                                                                <  7:224112/148‑1 (MQ=255)   aaaGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGAc                                                                                                                                               <  5:127072/149‑1 (MQ=255)    aaGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGAcc                                                                                                                                              >  3:43659/1‑149 (MQ=255)      gCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATGCGCAGACCTa                                                                                                                                            <  6:134404/149‑1 (MQ=255)        gggAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTaaa                                                                                                                                          <  7:151359/149‑1 (MQ=255)        gggAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTaaa                                                                                                                                          <  6:95827/149‑1 (MQ=255)                    ggTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCg                                                                                                                              <  8:3465/149‑1 (MQ=255)                         ttGGTCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGccatcgaaatgagcggtgaggccg                                                                                                                         >  7:225327‑M1/1‑125 (MQ=255)                          gagCCGCTTTACGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCAtt                                                                                                                        >  8:84239/3‑149 (MQ=255)                           ggCCGCGTAACGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCAtt                                                                                                                        <  1:200495/148‑1 (MQ=255)                           ggCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCAtt                                                                                                                        <  1:203882/148‑1 (MQ=255)                               gcgTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGAt                                                                                                                   <  8:148492/149‑1 (MQ=255)                                cgTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATg                                                                                                                  <  7:166240/149‑1 (MQ=255)                                 gTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATgg                                                                                                                 <  8:55120/149‑1 (MQ=255)                                 gTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATgg                                                                                                                 >  6:13433/1‑149 (MQ=255)                                       cGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgt                                                                                                           >  7:26504‑M2/1‑143 (MQ=255)                                        ggCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGccatcgaaatgagcggtgaggccgctttaggtctgcgta                                                                                                          <  8:225327‑M1/149‑40 (MQ=255)                                             gAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGccatcgaaatgagcggtgaggccgctttaggtctgcgtatggg                                                                                                      <  6:47364‑M1/148‑44 (MQ=255)                                             gAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGccatcgaaatgagcggtgaggccgctttaggtctgcgtatggg                                                                                                      <  1:126727‑M1/148‑44 (MQ=255)                                                    agcagGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTgg                                                                                                         >  1:105521/1‑138 (MQ=255)                                                             cgcgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                      <  7:100080/148‑1 (MQ=255)                                                             cgcgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                      <  7:84239/148‑1 (MQ=255)                                                               cgcgGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTa                                                                                   >  6:199306/1‑149 (MQ=255)                                                                     cTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGccatcgaaatgagcggtgaggccgctttaggtctgcgtatg                                                                                                        <  3:4985‑M1/122‑42 (MQ=255)                                                                     cTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACCCAGccaaagaaatgagcggttaggccgctttaggtctgcgtatg                                                                                                        >  4:4985‑M1/1‑81 (MQ=255)                                                                          ccAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGt                                                                        >  4:211471/1‑149 (MQ=255)                                                                           cAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCggg                                                                                      <  3:113261/134‑1 (MQ=255)                                                                           cAGGGAGGGGGCCTGGGCCGCAGTGACCCCGGCCAGCCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATAAGCAGACATAAAGCGGCCTCACCGCTCAATACGATGGCTGAGTGGCCCATGTGCATGTacaggg                                                                                      >  4:113261/1‑129 (MQ=255)                                                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                            >  1:161239/1‑149 (MQ=255)                                                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCACACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCa                                                                                               <  5:242053/114‑1 (MQ=255)                                                                                      ccTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCACACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCa                                                                                               >  6:242053/1‑114 (MQ=255)                                                                                          ggCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCa                                                        <  3:31240/149‑1 (MQ=255)                                                                                                     ccccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTcgcg                                             <  3:211471/149‑1 (MQ=255)                                                                                                      cccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGt                                            >  3:110873/1‑149 (MQ=255)                                                                                                       ccGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTc                                           >  4:177809/1‑149 (MQ=255)                                                                                                            cAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGc                                      <  4:178777/149‑1 (MQ=255)                                                                                                               gCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                            >  1:96342/1‑124 (MQ=255)                                                                                                               gCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCg                                                            <  2:96342/124‑1 (MQ=255)                                                                                                                        cgcCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCgca                          <  5:13433/149‑1 (MQ=255)                                                                                                                           cAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCgcagc                        >  6:98403/1‑148 (MQ=255)                                                                                                                            aGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCaa                      >  3:221165/1‑149 (MQ=255)                                                                                                                                     aGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAgg             <  4:178280/149‑1 (MQ=255)                                                                                                                                           cccATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttc        <  1:126727‑M2/148‑106 (MQ=255)                                                                                                                                           cccATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttc        <  6:47364‑M2/148‑106 (MQ=255)                                                                                                                                             cATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgag                                <  3:4985‑M2/122‑82 (MQ=255)                                                                                                                                             cATACGCAGACCTAAAGCGGCCTAACCGCTCATTTCTTTGGctgggtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgag                                >  4:4985‑M2/1‑41 (MQ=255)                                                                                                                                              aTACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGcc    >  3:23183/1‑149 (MQ=255)                                                                                                                                               tACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttcgagcc   <  8:225327‑M2/149‑111 (MQ=255)                                                                                                                                                aCGCAGccatcgaaatgagcggtgaggccgctttaggtctgcgtatggggcgcctcagccggctggcgcatacgggcctggccggggtcactgcggcccaggcccccaccctgggcgaggccgcgcgtaccctgctgcgtttcgagccg  >  7:26504‑M1/1‑6 (MQ=255)                                                                                                                                                 cGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCa  <  4:23183/148‑1 (MQ=255)                                                                                                                                                    aGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAg                                        >  5:38965/1‑107 (MQ=255)                                                                                                                                                    aGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAg                                        <  6:38965/107‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                TCAAAGCGGGAATGGCCGCGGTAGTTGGCCGCGTAAAGCGGCTCGAAACGCAGCAGGGTACGCGCGGCCTCGCCCAGGGTGGGGGCCTGGGCCGCAGTGACCCCGGCCAGGCCCGTATGCGCCAGCCGGCTGAGGCGCCCCATACGCAGACCTAAAGCGGCCTCACCGCTCATTTCGATGGCTGCGTGGCCCATGTGCATGTAGCGGGGTATGGACAGGCGTGCGCCGGCTTCGCTCAGGCGGGTCGCGTCCAGGCCGTAGCGGCGCAGCAATGGTTCAGGGTCGTGGCCCA  >  NC_002947/2273999‑2274290

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.