New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AM260479	332818 =	28 (1.110)	6 (0.250)	5/190	1.6	20.7%	coding (1126/1710 nt)	nagE	Protein‑N(pi)‑phosphohistidine‑sugar phosphotransferase II ABC, N‑acetylglucosamine‑specific
	?	AM260479	332850 =	20 (0.850)					coding (1158/1710 nt)	nagE	Protein‑N(pi)‑phosphohistidine‑sugar phosphotransferase II ABC, N‑acetylglucosamine‑specific

GCTGTCCAGCCGCGGCTGGCTGGCGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGCTGAACGTGGCCGAC  >  AM260479/332688‑332949                                                                                                                                   |                                                                                                                                    cttgagccgcggctcggacaccgcgccgatgtcggccacgttcagccgcagacgcgtggtgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCgg                                                                                                                                  <  2:676213‑M1/4‑1 (MQ=255)  ttgagccgcggctcggacaccgcgccgatgtcggccacgttcagccgcagacgcgtggtgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCGgc                                                                                                                                 <  2:511931‑M1/5‑1 (MQ=255)  cTGTCCAGCCGCGGCTGGCTGGCGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTggcggc                                                                                                                                 >  2:64924/1‑134 (MQ=255)         gCCGCGGCTGGCTGGCGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGgcccggcgt                                                                                                                          >  1:71227/1‑128 (MQ=255)                   gctggcGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCcgcg                                                                                                                 >  1:271015/1‑133 (MQ=255)                       gcGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAgcc                                                                                                            <  2:271015/134‑1 (MQ=255)                               gCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCgg                                                                                                    <  2:722220/134‑1 (MQ=255)                                            tATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGgcgc                                                                                        >  1:353352/1‑133 (MQ=255)                                                 gcTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAg                                                                                   >  1:511931/1‑133 (MQ=255)                                                  cTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGgc                                                                                          <  2:622253/125‑1 (MQ=255)                                                  cTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGgc                                                                                          >  1:622253/1‑125 (MQ=255)                                                       cTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTggc                                                                                                                                    <  1:605052/78‑1 (MQ=255)                                                       cTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTggc                                                                                                                                    >  2:605052/1‑78 (MQ=255)                                                        tATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCcggc                                                                                                                          <  1:41334/87‑1 (MQ=255)                                                        tATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCcggc                                                                                                                          >  2:41334/1‑87 (MQ=255)                                                         tggtgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCGGCCG‑‑‑GCGGTGCCGcgcagccggcggcc                                                                                                     >  2:653549‑M1/75‑100 (MQ=255)                                                         tggtgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCGGCCG‑‑‑GCGGTGCCGcgcagccggcggcc                                                                                                     <  1:653549‑M1/30‑5 (MQ=255)                                                         aTTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGc                                                                                                  >  2:838869/1‑110 (MQ=255)                                                         aTTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGc                                                                                                  <  1:838869/110‑1 (MQ=255)                                                         aTTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCg                                                                            >  1:846544/1‑132 (MQ=255)                                                            tgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCGgccg                                                                                                                               <  1:401089‑M1/7‑1 (MQ=255)                                                            tgcaggcatcgaccacgaccaggttggcagggccgcccagcgcttcgacatactgttgcgccacgctgcccGCGgccg                                                                                                                               >  2:401089‑M1/72‑78 (MQ=255)                                                                    ttCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGggcgg                                                               >  1:863247/1‑134 (MQ=255)                                                                        gCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTggc                                                                                                                                    <  2:32932/61‑1 (MQ=255)                                                                        gCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTggc                                                                                                                                    >  1:32932/1‑61 (MQ=255)                                                                        gCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCt                                                           >  2:539919/1‑134 (MQ=255)                                                                                 tCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCtg                                                  <  2:846544/134‑1 (MQ=255)                                                                                      cgcTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCtggtcgt                                             <  2:353352/134‑1 (MQ=255)                                                                                            aaCCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGa                                       <  2:863247/134‑1 (MQ=255)                                                                                                          gggCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCAcgc                         <  1:539919/134‑1 (MQ=255)                                                                                                           ggCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCtggtcgt                                             >  2:1033413/1‑113 (MQ=255)                                                                                                           ggCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCtggtcgt                                             <  1:1033413/113‑1 (MQ=255)                                                                                                             atactgttgcgccacgctgcccGCGGCCGCCGGCGGTGCCGCGCAgccggccg                                                                                                       <  2:876507‑M1/31‑1 (MQ=255)                                                                                                             atactgttgcgccacgctgcccGCGGCCGCCGGCGGTGCCGCGCAgccggccg                                                                                                       >  1:876507‑M1/23‑53 (MQ=255)                                                                                                                   tGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGc                >  1:286293/1‑134 (MQ=255)                                                                                                                               gcccGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGCTGAACGTGGcc     <  2:610449‑M1/129‑1 (MQ=255)                                                                                                                                 tGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGCTGAACGTGGCCGa   >  2:168191/1‑133 (MQ=255)                                                                                                                                 ccGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGCTGAACGTGGCCGAc  >  1:610449‑M1/3‑134 (MQ=255)                                                                                                                                   |                                                                                                                                    GCTGTCCAGCCGCGGCTGGCTGGCGATTCCGCTGGGGCTGGCCTATGCGCTGGTCTATTACGGGCTGTTCCGCTTCTTTATCCGCCGCTTCAACCTGCTGACGCCGGGCCGCGATGAAGTGGTGCCCGTGGCGGCCGCCGGCGGTGCCGCGCAGCCGGCCGCGGGCAGCGTGGCGCAACAGTATGTCGAAGCGCTGGGCGGCCCTGCCAACCTGGTCGTGGTCGATGCCTGCACCACGCGTCTGCGGCTGAACGTGGCCGAC  >  AM260479/332688‑332949

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ 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.