New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	420930 =	117 (0.890)	22 (0.180)	18/246	10.9	17.4%	intergenic (+20/‑56)	brnQ/proY	branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease
	?	NC_000913_3_pae_pgi	420958 =	102 (0.850)					intergenic (+48/‑28)	brnQ/proY	branched‑chain amino acid transport system 2 carrier protein; LIV‑II transport system for Ile, Leu, and Val/proline‑specific permease
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TCTGCCGAACCGTAAAACAGCCCGGTGCCAATTGCTGAACCCAGTGCCATAAAGCGTATGTGGCGGGTACTTAGCCCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/421089‑420930 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccccgtggttTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAATGGCC  >  NC_000913_3_pae_pgi/420958‑421105                                                                                                                                                                                                                                                                                                                      TCTGCCGAACCGTAAAACAGCCCGGTGCCAATTGCTGAACCCAGTGCCATAAAGCGTATGTGGCGGGTACTTAGCCCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAG                                                                                                                                                                <  3:639855/150‑1       GAACCGTAAAACAGCCCGGTGCCAATTGCTGAACCCAGTGCCATAAAGCGTATGTGGCGGGTACTTAGCCCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGT                                                                                                                                                          >  2:637164/1‑150        AACCGTAAAACAGCCCGGTGCCAATTGCTGAACCCAGTGCCATAAAGCGTATGTGGCGGGTACTTAGCCCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTG                                                                                                                                                         <  3:620738/150‑1                                                                            CCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTACAGCGTGGGCTAAGTA                                                                                     >  3:607959/1‑150                                                                                                  TTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGGGTGGGCTAAGTACCCGCCACATACGCTTGATTGC                                                               >  4:749765/1‑150                                                                                                      CATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTG                                                           <  3:162521/150‑1                                                                                                       ATCAATTCCTACCCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATCGTGTTGACGGGCTAGGAATTGAAGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCCTTATGGAACTGG                                                          >  1:333088/1‑150                                                                                                        TCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGG                                                         >  4:27237/1‑150                                                                                                               CTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGG                                                                                             >  4:656867/1‑107                                                                                                               CTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGG                                                                                             <  3:656867/107‑1                                                                                                                                TAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTAT                                                                  <  2:952901/117‑1                                                                                                                                TAAAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTAT                                                                  >  1:952901/1‑117                                                                                                                                  AAAAACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTT                               <  3:27237/150‑1                                                                                                                                     AACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACG                            >  4:452361/1‑150                                                                                                                                     AACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTT                                                       <  3:325002/123‑1                                                                                                                                     AACCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTT                                                       >  4:325002/1‑123                                                                                                                                       CCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGT                          >  1:240826/1‑150                                                                                                                                       CCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGT                          >  3:491837/1‑150                                                                                                                                       CCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAG                                                    <  2:18381/124‑1                                                                                                                                       CCACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAG                                                    >  1:18381/1‑124                                                                                                                                        CACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTC                                                      <  4:367690/121‑1                                                                                                                                        CACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTC                                                      >  3:367690/1‑121                                                                                                                                        CACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGT                                                                                                                 <  2:871503/62‑1                                                                                                                                        CACGGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGT                                                                                                                 >  1:871503/1‑62                                                                                                                                           GGGGCATCGCAGCCCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGG                      <  2:240826/150‑1                                                                                                                                                        CCCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAA         >  1:1269586/1‑150                                                                                                                                                         CCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAA        >  2:699127/1‑150                                                                                                                                                         CCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAA        <  1:563996/150‑1                                                                                                                                                         CCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCA                                                     <  2:1056452/105‑1                                                                                                                                                         CCGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCA                                                     >  1:1056452/1‑105                                                                                                                                                          CGTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAA       <  4:491837/150‑1                                                                                                                                                           GTGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAAT      <  4:607959/150‑1                                                                                                                                                            TGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGG                      <  2:1142910/133‑1                                                                                                                                                            TGGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGG                      >  1:1142910/1‑133                                                                                                                                                             GGTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAATGG    <  3:78602/150‑1                                                                                                                                                              GTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAATGGC   <  1:499377/150‑1                                                                                                                                                              GTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATT                                               <  4:220175/106‑1                                                                                                                                                              GTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATT                                               >  3:220175/1‑106                                                                                                                                                              GTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATG                                                                 >  1:1493668/1‑88                                                                                                                                                              GTTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATG                                                                 <  2:1493668/88‑1                                                                                                                                                               TTTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAATGGCC  >  1:15695/1‑150                                                                                                                                                                                                                                                                                                                      TCTGCCGAACCGTAAAACAGCCCGGTGCCAATTGCTGAACCCAGTGCCATAAAGCGTATGTGGCGGGTACTTAGCCCACGCTTTAGCTTGTTCTTACTTTCCATCAATTCCTAACCCATCAACACAATAAAAAACCACGGGGCATCGCAGCCCCGTGGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/421089‑420930 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccccgtggttTTTTATTGTGTTGATGGGTTAGGAATTGATGGAAAGTAAGAACAAGCTAAAGCGTGGGCTAAGTACCCGCCACATACGCTTTATGGCACTGGGTTCAGCAATTGGCACCGGGCTGTTTTACGGTTCGGCAGACGCCATCAAAATGGCC  >  NC_000913_3_pae_pgi/420958‑421105

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.