New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1097172 =	NA (NA)	31 (0.150)	28/236	15.2	18.7%	intergenic (+343/+393)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
	?	NC_000913_3_pae_tpiA	1097188 =	138 (0.670)					intergenic (+359/+377)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GATGAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGgct‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1097320‑1097172 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATAT  >  NC_000913_3_pae_tpiA/1097188‑1097339                                                                                                                                                                                                                                                                                                               GATGAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGG                                                                                                                                                         <  3:814863/150‑1   TGAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCT                                                                                                                                                       >  2:1856981/1‑150    GAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCT                                                                                                                                                       >  1:820344/1‑149    GAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCT                                                                                                                                                       <  2:820344/149‑1                   GGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGC                                                                                                                                                        >  2:473512/1‑133                   GGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGC                                                                                                                                                        <  1:473512/133‑1                                                                      GGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCT                                                                                                                                                       >  2:649534/1‑83                                                                      GGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCT                                                                                                                                                       <  1:649534/83‑1                                                                                                 GTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCG                                                                                                         >  2:534889/1‑102                                                                                                 GTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCG                                                                                                         <  1:534889/102‑1                                                                                                     ATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGG                                                                                                                                                         <  2:315261/50‑1                                                                                                     ATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGG                                                                                                                                                         >  1:315261/1‑50                                                                                                      TCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGG                                                                                                                                        >  2:1145133/1‑66                                                                                                      TCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGG                                                                                                                                        <  1:1145133/66‑1                                                                                                       CCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCA                                                                                              >  4:1320957/1‑107                                                                                                       CCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCA                                                                                              <  3:1320957/107‑1                                                                                                        CCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGG                                                                                                                            <  4:1281268/76‑1                                                                                                        CCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGG                                                                                                                            >  3:1281268/1‑76                                                                                                              TCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACG                                                                          <  1:2468885/120‑1                                                                                                              TCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACG                                                                          >  2:2468885/1‑120                                                                                                                   GCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGC                                                                                                                                       >  3:1146135/1‑54                                                                                                                   GCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGC                                                                                                                                       <  4:1146135/54‑1                                                                                                                         TTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTGTGTCCAACTGGCTGTCGCCAGTCGTCGAACACCGATCG                                 >  4:485397/1‑150                                                                                                                         TTTAAAGAAGAGCTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTGCCCGGTCTGTCCCACTGGCTGTCGCCAGTCGTCGAACCCCGGTCG                                 >  2:432505/1‑150                                                                                                                            AAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTT                                                                                                                                                >  1:2044306/1‑36                                                                                                                            AAAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTT                                                                                                                                                <  2:2044306/36‑1                                                                                                                             AAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTC                                                                                                          >  2:1604730/1‑73                                                                                                                             AAGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTC                                                                                                          <  1:1604730/73‑1                                                                                                                              AGAAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCT                            >  3:664613/1‑150                                                                                                                                AAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCT                                                                                       <  2:2627669/89‑1                                                                                                                                AAGAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCT                                                                                       >  1:2627669/1‑89                                                                                                                                  GAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTC                        >  4:598781/1‑150                                                                                                                                  GAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACT                                                              >  1:789419/1‑112                                                                                                                                  GAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACT                                                              <  2:789419/112‑1                                                                                                                                  GAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTC                                                                   <  4:1384855/107‑1                                                                                                                                  GAGCTCGTACGAAAGTACGGGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTC                                                                   >  3:1384855/1‑107                                                                                                                                     CTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTT                                                <  3:807662/123‑1                                                                                                                                     CTCGTACGAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTT                                                >  4:807662/1‑123                                                                                                                                            GAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCC                 <  3:1041314/147‑1                                                                                                                                            GAAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCC                 >  4:1041314/1‑147                                                                                                                                             AAAGTACGGGCTTTTTTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGTCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGGCAGTTGTCGAACCCCGGGCGGGGCTTCTGATCCCCCCGGT             >  1:139488/1‑150                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAAT    >  4:1244514/1‑150                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAAT    >  4:463400/1‑150                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGT                                                                        >  3:377012/1‑82                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGT                                                                        <  4:377012/82‑1                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCAC                                                                           >  1:1199400/1‑79                                                                                                                                                      GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCAC                                                                           <  2:1199400/79‑1                                                                                                                                                       CTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATA   <  1:1295745/150‑1                                                                                                                                                       CTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATA   <  4:1544752/150‑1                                                                                                                                                       CTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGT         <  2:1407639/144‑1                                                                                                                                                       CTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGT         >  1:1407639/1‑144                                                                                                                                                        TCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATAT  <  3:411361/150‑1                                                                                                                                                        TCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATAT  >  4:680424/1‑150                                                                                                                                                        TCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATAT  >  2:2483980/1‑150                                                                                                                                                        TCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAC                                                                                    >  1:2368110/1‑68                                                                                                                                                        TCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCAC                                                                                    <  2:2368110/68‑1                                                                                                                                                                                                                                                                                                               GATGAGAAGCCCCGACCGGGGTTCGACAACTGGCGACAGCCAGTTGGACAGACCGTGAACGCAGTGAGCGGGCTGCCCGCAGGGCGAGCGAAGCGAGTCAATCCCCCCCTCACCGCCATATTTAAAGAAGAGCTCGTACGAAAGTACGGgct‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/1097320‑1097172 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGAACCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATAT  >  NC_000913_3_pae_tpiA/1097188‑1097339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.