New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 2916574	147 (0.810)	37 (0.200)	32/198	10.9	20.1%	coding (1518/2757 nt)	barA	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY
	?	NC_000913	= 3584195	NA (NA)					noncoding (768/768 nt)	IS1	repeat region
Rejected: Coverage evenness skew score above cutoff.

TTCCCGCCGTCATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2916481‑2916574 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGA  <  NC_000913/3584195‑3584103                                                                                                                                                                                             TTCCCGCCGTCATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAAT                                                                                         <  2:1521383/100‑1    CCGCCGTCATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGAC                                                                                      <  1:2049870/100‑1       CCGTCATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCC                                                                                   <  1:3817132/100‑1           CATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACT                                                                               >  1:4503357/1‑100            ATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTT                                                                              >  2:486474/1‑100                TGGCACCGGGCTGGGGCGGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTG                                                                          <  2:1012485/100‑1                  GCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGAT                                                                        <  1:1817626/100‑1                        GGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTT                                                                  <  1:3256000/100‑1                         GCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTT                                                                 <  1:1889273/100‑1                          CTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTT                                                                <  1:3979863/100‑1                           TGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTA                                                               <  1:305205/100‑1                            GGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                              >  1:2257652/1‑100                            GGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                              <  1:2290297/100‑1                            GGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                              >  1:3386031/1‑100                                 TGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCA                                                         <  1:1093259/100‑1                                 TGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCA                                                         <  2:1358667/100‑1                                  GGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAG                                                        >  2:604224/1‑100                                  GGTGATTACACAAAAACTGGTTAAGGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAG                                                        >  2:4161175/1‑100                                      ATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAA                                                    >  1:3353742/1‑100                                       TTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAAT                                                   <  1:45255/100‑1                                          CACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCC                                                <  1:846014/100‑1                                           ACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCC                                               <  2:71401/100‑1                                            CAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCG                                              >  2:2045482/1‑100                                              AAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGAT                                            >  1:1740105/1‑100                                                AACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGA                                          <  2:2453675/100‑1                                                         ATGAAATGGGCGGCGATATTGCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTTAT                                 >  1:4107499/1‑100                                                                   CGGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCAC                       <  1:614504/100‑1                                                                    GGCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACC                      >  1:1487845/1‑100                                                                     GCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCG                     <  1:3370337/100‑1                                                                     GCGATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCG                     <  1:2913152/100‑1                                                                       GATATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCATCGAT                   >  2:110710/1‑100                                                                          ATTTCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTT                <  1:2731146/100‑1                                                                             TCGTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAG             >  1:520087/1‑100                                                                               GTTCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAA           >  2:1190169/1‑100                                                                                 TCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACG         <  1:2072732/100‑1                                                                                 TCCATAGCCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCACGATGACTTTGTGATGCAGCTCCACCGATTTTGAGAACG         >  2:1827560/1‑100                                                                                        CCAGCCGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGA  <  2:1716820/100‑1                                                                                                                                                                                             TTCCCGCCGTCATGGTGGCACCGGGCTGGGGCTGGTGATTACACAAAAACTGGTTAATGAAATGGGCGGCGATATTTCGTTCCATAGCCAGCCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2916481‑2916574 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGA  <  NC_000913/3584195‑3584103

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ 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.