New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	3463508 =	3 (0.230)	15 (1.180)	13/162	0.1	83.7%	coding (1181/1185 nt)	tuf	elongation factor Tu
	?	NZ_CP009273	= 3577553	NA (NA)					intergenic (+13/‑211)	BW25113_RS17830/BW25113_RS25760	IS1‑like element IS1A family transposase/hypothetical protein

ACCCGATCGCGATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/3463595‑3463508 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGC  <  NZ_CP009273/3577553‑3577465                                                                                                                                                                                   ACCCGATCGCGATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTA                                                                                         >  2:297384/1‑90          CGATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCA                                                                                <  1:55684/90‑1          CGATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCA                                                                                <  2:277925/90‑1            ATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAAC                                                                              <  1:36683/90‑1                     GGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATA                                                                     <  2:337663/90‑1                                  CAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTC                                                        <  1:255835/90‑1                                  CAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTC                                                        <  1:339254/90‑1                                      CCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGAT                                                    <  2:319569/90‑1                                                GGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGAT                                          <  1:368642/90‑1                                                  CCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGA                                        >  2:47078/1‑90                                                        CGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGT                                  <  2:324554/90‑1                                                           TGGCGCGGGCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCAT                               >  1:61205/1‑90                                                                   GCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGAC                                       <  1:41268/74‑1                                                                   GCGTTGTTGCTAAAGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGAC                                       >  2:41268/1‑74                                                                                AGTTCTGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGA          <  1:63990/90‑1                                                                                        GTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGC  >  1:69923/1‑90                                                                                                                                                                                   ACCCGATCGCGATGGACGACGGTCTGCGTTTCGCAATCCGTGAAGGCGGCCGTACCGTTGGCGCGGGCGTTGTTGCTAAAGTTCTGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/3463595‑3463508 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGC  <  NZ_CP009273/3577553‑3577465

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ 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.