New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	3193915 =	33 (0.830)	3 (0.080)	3/324	NT	8.4%	coding (955/1332 nt)	PP_2802	Amino acid permease family protein
	?	AE015451	3193939 =	34 (0.880)					coding (931/1332 nt)	PP_2802	Amino acid permease family protein

CGCAGCAACCCGGCGCCGTCCTTGACGCGCGCATCGAAGGTGAGCCGCAAGGCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGTACGAGGAGC  >  AE015451/3193704‑3194130                                                                                                                                                                                                                    |                                                                                                                                                                                                                        cgcAGCAACCCGGCGCCGTCCTTGACGCGCGCATCGAAGGTGAGCCGCAAGGCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGc                                                                                                                                                                                                  <  1:269850/235‑1 (MQ=255)                     cTTGACGCGCGCATCGAAGGTGAGCCGCAAGGCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGagc                                                                                                                                                                                    <  2:315814/229‑1 (MQ=255)                                                   ggCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGc                                                                                                                                                 >  1:610389/1‑234 (MQ=255)                                                   ggCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCC‑GGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGGCGAGCAGCCGGCCCACg                                                                                                                                                                        >  2:691758/1‑210 (MQ=255)                                                         caGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGc                                                                                                                                              <  2:610388/231‑1 (MQ=255)                                                            gTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCgg                                                                                                                                                                                                   <  2:427743/175‑1 (MQ=255)                                                                 agcttgtggacggggccgccttcgagattgcccggatgatcggcggcgacctgttcttcgccgtggtcctgaccgggatcatcgtcgcccacttcgctgcggggatgtcattccaggccagcgtgggccggctgctctacgcccttgg                                                                                                                                                                                                                         >  2:474631‑M1/148‑148 (MQ=255)                                                                         aaGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGt                                                                                                                                         <  2:716879/220‑1 (MQ=255)                                                                         aaGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGt                                                                                                                                         >  1:716880/1‑220 (MQ=255)                                                                                  gaGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGc                                                                                                                                              <  1:600429/205‑1 (MQ=255)                                                                                  aaGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGa                                                                                                                 <  1:40304/235‑1 (MQ=255)                                                                                                    aGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGACGAACAGGTc                                                                                              >  1:225844/1‑236 (MQ=255)                                                                                                        aaGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTcg                                                                                             >  2:664744/1‑233 (MQ=255)                                                                                                                       tCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATcc                                                                                <  2:464236/231‑1 (MQ=255)                                                                                                                                     ccGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAggcg                                                               <  2:652451/234‑1 (MQ=255)                                                                                                                                      cggcggTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACa                                                                                                                                                        >  2:303887/1‑144 (MQ=255)                                                                                                                                      cggcggTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACa                                                                                                                                                        <  1:303888/144‑1 (MQ=255)                                                                                                                                            tGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGGCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACa                                                                                                                                                        <  1:447422/138‑1 (MQ=255)                                                                                                                                                                aaGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTgggg                                    >  1:361553/1‑234 (MQ=255)                                                                                                                                                                  gATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCa                                                                                                                                                <  1:155088/124‑1 (MQ=255)                                                                                                                                                                      tggAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTg                            <  1:227960/234‑1 (MQ=255)                                                                                                                                                                        gAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGGgcg                          >  1:204110/1‑236 (MQ=255)                                                                                                                                                                          tgtcattccaggccagcgtgggccggctgctctactcccttgGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCAGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCgg                                                                              >  2:406419‑M1/43‑182 (MQ=255)                                                                                                                                                                          tgtcattccaggccagcgtgggccggctgctctacgcccttgGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCgg                                                                              <  1:406420‑M1/140‑1 (MQ=255)                                                                                                                                                                          aGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCAGCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCCCGAACGTgggg                                    >  1:443893/1‑224 (MQ=255)                                                                                                                                                                            gCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATcccc                                                                                                                                                   >  1:570784/1‑111 (MQ=255)                                                                                                                                                                                 ggTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACa                                                                                                  >  2:142251/1‑155 (MQ=255)                                                                                                                                                                                 ggTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGCgg                                >  2:326270/1‑221 (MQ=255)                                                                                                                                                                                  gTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTa                   <  1:133515/233‑1 (MQ=255)                                                                                                                                                                                   tCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGc                                                                            >  1:96121/1‑175 (MQ=255)                                                                                                                                                                                        tAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGTCAGTTGGTGGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAAc                                                                                                   <  2:32036/147‑1 (MQ=255)                                                                                                                                                                                                gTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGTACGAGGAGc  >  1:650134/1‑236 (MQ=255)                                                                                                                                                                                                gTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGGACATGAAGTACgag      >  1:216362/1‑232 (MQ=255)                                                                                                                                                                                                  gCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAg            >  1:722466/1‑224 (MQ=255)                                                                                                                                                                                                   cAGCGCGCCGAACAGCCGCCGGGGCAGTTGGGTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGCCCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTg                            <  1:154145/207‑1 (MQ=255)                                                                                                                                                                                                      gctctacgcccttgGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAg                                                 <  2:280218‑M1/169‑1 (MQ=255)                                                                                                                                                                                                      cgcgcCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGTACgag      <  2:650133/226‑1 (MQ=255)                                                                                                                                                                                                                  ccgccgGGGCGGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGt           <  2:303979/209‑1 (MQ=255)                                                                                                                                                                                                                  ccgccgGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGTACgagg     <  2:577293/215‑1 (MQ=255)                                                                                                                                                                                                                    |                                                                                                                                                                                                                        CGCAGCAACCCGGCGCCGTCCTTGACGCGCGCATCGAAGGTGAGCCGCAAGGCGCACAGGTTGACGGCGGTGAAGGCGAGAAAGGCGCCGAAGTTGACCAGGGAAGTCGCGGTTGCGATCGTCAGGCCAAACCCGGCGGTGCCGAAAACACCGCACAGCAAGATGTTGAAGGCCGGGGTCTTGTAGCGCGGGTGCAGCGCGCCGAACAGCCGCCGGGGCAGTTGGTTGTCCCGGCCAAGGGCGTAGAGCAGCCGGCCCACGCTGGCCTGGAATGACATCCCCGCAGCGAAGTGGGCGACGATGATCCCGGTCAGGACCACGGCGAAGAACAGGTCGCCGCCGATCATCCGGGCAATCTCGAAGGCGGCCCCGTCCACAAGCTCGAACGTGGGGGAGGGGTGCGCCAGGTACATGAAGTACGAGGAGC  >  AE015451/3193704‑3194130

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ 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.