New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	5866389 =	34 (0.780)	5 (0.120)	5/320	NT	15.0%	coding (156/444 nt)	PP_5140	Transcriptional regulator, MerR family
	?	AE015451	5866470 =	25 (0.610)					coding (237/444 nt)	PP_5140	Transcriptional regulator, MerR family

ACTGCGCGGTGGAAACCATCCGCTACTACGAGCGTGAAAACCTGCTGCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGCGGAGTCACGGGCATTGAGCCAA  >  AE015451/5866265‑5866682                                                                                                                                                                                                              |                                                                                                                                                                                                                     aCTGCGCGGTGGAAACCATCCGCTACTACGAGCGTGAAAACCTGCTGCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTCCTGCCGCGCCAATgcgcc                                                                                                                                                                                                           >  2:617620/1‑216 (MQ=255)      gcgGTGGAAACCATCCGCTACTACGAGCGTGAAAACCTGCTGCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCTGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGt                                                                                                                                                                                   >  1:728389/1‑236 (MQ=255)        ggTGGAAACCATCCGCTACTACGAGCGTGAAAACCTGCTGCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGCAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCgc                                                                                                                                                                                                                    >  1:255569/1‑200 (MQ=255)                          cagcgccgccgcagctccaccagctcctcctgcaatgccaccaagccatcgatccgcgcctgaacatgctcgatatgctcgtcgatcagcgcattgacgctgccgcacgcgtcgtcggggctgtcgcgcaggcgtagcaggctgcgaatttcgtccagggtcatgtccagcgtgcggcagCGTCAAt                                                                                                                                                                                                                <  2:649094‑M2/7‑1 (MQ=255)                                          ctgctgCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCTGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGc                                                                                                                                                   <  2:728387/232‑1 (MQ=255)                                             ctgcCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGa                                                                                                                                               <  2:693886/233‑1 (MQ=255)                                               gcCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGc                                                                                                                                                   >  2:339565/1‑227 (MQ=255)                                                        tgcaatgccaccaagccatcgatccgcgcctgaacatgctcgatatgctcgtcgatcagcgcattgacgctgccgcacgcgtcgtcggggctgtcgcgcaggcgtagcaggctgcgaatttcgtccagggtcatgtccagcgtgcggcagCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAg                                                                                                                                                                               >  1:649806‑M2/151‑190 (MQ=255)                                                                  gAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATcgacg                                                                                                                                                                                                   >  2:729288/1‑160 (MQ=255)                                                                    aagccatcgatccgcgcctgaacatgctcgatatgctcgtcgatcagcgcattgacgctgccgcacgcgtcgtcggggctgtcgcgcaggcgtagcaggctgcgaatttcgtccagggccatgtccagcgtgcggcagc                                                                                                                                                                                                                      >  2:122492‑M2/139‑139 (MQ=255)                                                                     ggCAACTACCGGTTGTACACCCAGGCCCTTGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATc                                                                                                                                                                      <  2:156260/186‑1 (MQ=255)                                                                      gCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTg                                                                                                                    >  1:325131/1‑235 (MQ=255)                                                                                cgcgcctgaacatgctcgatatgctcgtcgatcagcgcattgacgctgccgcacgcgtcgtcggggctgtcgcgcaggcgtagcaggctgcgaatttcgtccagggtcatgtccagcgtgcggcagCGTCAATGCGCTGATCGACGAGCatat                                                                                                                                                                                            <  2:649804‑M2/27‑1 (MQ=255)                                                                                     ctgaacatgctcgatatgctcgtcgatcagcgcattgacgCTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCa                                                                                                                                                  >  1:649806‑M1/41‑190 (MQ=255)                                                                                              cccATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAg                                                                                                                                  >  2:541215/1‑197 (MQ=255)                                                                                                cgatatgctcgtcgatcagcgcattgccgCTGCCGCACGCTGGACATGACCCTGGACGAAATGCGCAGCCTGCTACGCCTGCGCGACAGCCGCGACGACGCGTGCGGCAGCGTCAATGCGCTGATcgac                                                                                                                                                                                                    <  2:724102‑M1/100‑1 (MQ=255)                                                                                                  atatgctcgtcgatcagcgcattgacgCTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGcgcg                                                                                                                                                                          <  2:649804‑M1/126‑1 (MQ=255)                                                                                                    tgGAGCGGCTGACCTTCATCCGCAACTACCGCAAGCTGGACATAACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGTCGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGTATGTTCAGGCGCGGATCGATGGCATGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAAcg                                                                                                               >  2:496215/1‑210 (MQ=255)                                                                                                     ggAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTg                                                                                     >  1:459992/1‑235 (MQ=255)                                                                                                      gAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTgc                                                                                    >  1:602524/1‑235 (MQ=255)                                                                                                          gtcgatcagcgcattgacgctgccgcacgcgtcgtcgcggctgtcgcgcaggcgtagcaggctgcgcatttcgtccagggtcatgtccagcgtgcggcagCGGCAATGCGCTGATCGACGAGCATATCg                                                                                                                                                                                          <  2:724102‑M2/29‑1 (MQ=255)                                                                                                              gACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCAtt                                                                                                                                                     >  1:401628/1‑162 (MQ=255)                                                                                                                      attgacgCTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGGAGCTGGTGGAGCTGCGGCGGCGCTg                                                                                                                    <  2:649094‑M1/180‑1 (MQ=255)                                                                                                                            gCTGCCGCACGCTGGACATGGCCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCtt                                                                                                                                                              >  2:122492‑M1/2‑139 (MQ=255)                                                                                                                              TGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAAcg                                                                                                               >  2:707591‑M1/1‑184 (MQ=255)                                                                                                                                     CGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGGGCATATCGAGCATGTTCAGGCGCGGATc                                                                                                                                                                      <  2:239319‑M1/122‑1 (MQ=255)                                                                                                                                          gACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTAc                                                   >  2:711467/1‑232 (MQ=255)                                                                                                                                           gtcggggctgtcgcgcaggcgtagcaggctgcgaatttcgtccagggtcatgtccagcgtgcggcagCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAg                                                                                                     <  2:12744‑M2/114‑1 (MQ=255)                                                                                                                                                   cTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGa                                               >  2:439182/1‑227 (MQ=255)                                                                                                                                                          tgtcgcGCAGCCTGCTACGCCTGCGCGACAG‑CCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTgcagc                                                                                 <  2:358514/180‑1 (MQ=255)                                                                                                                                                          tgtcgcGCAGCCTGCTACGCCTGCGCGACAG‑CCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTgcagc                                                                                 >  1:358516/6‑185 (MQ=255)                                                                                                                                                              tCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAgg                                                                                                         >  2:26373/1‑158 (MQ=255)                                                                                                                                                              gcgcgGCCCGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCa                                                                                                           <  2:255567/155‑1 (MQ=255)                                                                                                                                                                  aGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGc                        <  1:339567/235‑1 (MQ=255)                                                                                                                                                                          aCGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCgg                                                <  2:556845/203‑1 (MQ=255)                                                                                                                                                                           cGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGCGGAGTCACgg              >  1:468175/1‑236 (MQ=255)                                                                                                                                                                                         ccccGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAAcg                                                                                                               <  2:291366/125‑1 (MQ=255)                                                                                                                                                                                         ccccGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGCGGAGTCACGGGCATTGAGCCaa  >  2:778434/1‑234 (MQ=255)                                                                                                                                                                                         ccccGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGAGCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAAt                                                                                                <  2:383106/140‑1 (MQ=255)                                                                                                                                                                                                           cagCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGCGGGGTCACGGGCATTg        >  1:670208‑M2/4‑210 (MQ=255)                                                                                                                                                                                                              |                                                                                                                                                                                                                     ACTGCGCGGTGGAAACCATCCGCTACTACGAGCGTGAAAACCTGCTGCCAGAGCCGGCGCGCAGCGAGGGCAACTACCGGTTGTACACCCAGGCCCATGTGGAGCGGCTGACCTTCATCCGCAACTGCCGCACGCTGGACATGACCCTGGACGAAATTCGCAGCCTGCTACGCCTGCGCGACAGCCCCGACGACGCGTGCGGCAGCGTCAATGCGCTGATCGACGAGCATATCGAGCATGTTCAGGCGCGGATCGATGGCTTGGTGGCATTGCAGGAGCAGCTGGTGGAGCTGCGGCGGCGCTGCAACGCGCAGGGGAGTGAATGCGCGATCTTGCAGCAACTGGAGACAAACGGGGCGGTATCGGTACCGGATACCGAACATTCCCATGTGGGGCGGAGTCACGGGCATTGAGCCAA  >  AE015451/5866265‑5866682

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.