New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6019248 =	53 (0.980)	5 (0.110)	4/214	NT	12.3%	intergenic (‑49/+96)	dadX/dadA‑II	alanine racemase/D‑amino acid:quinone oxidoreductase
	?	NC_002947	6019324 =	28 (0.630)					intergenic (‑125/+20)	dadX/dadA‑II	alanine racemase/D‑amino acid:quinone oxidoreductase

TCTCCCGTTATGGCAATAGCCGGGAAGTGGCCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/6019411‑6019248 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctgtgggagcgggcaagcccgcAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAATCAGGTCGGCCAGCAGG  >  NC_002947/6019324‑6019470                                                                                                                                                                                                                                                                                                                         TCTCCCGTTATGGCAATAGCCGGGAAGTGGCCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGG                                                                                                                                                                     <  1:260108/148‑1       GTTATGGCAATAGCCGGGAAGTGGCCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGG                                                                                                                                                              <  2:128598/149‑1           TGGCAATAGCCGGGAAGTGGCCAAGCACGGGCAAAGCGCGCCGGCTCCCCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCCCAGGAACCCAACCCCTTTTCAAAGCGGTGCCCGCCCTGTGGGCGCGGGCAAG                                                                                                                                                          >  6:9573/1‑149                               CCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGG                                                                                                                                                                     >  6:148195/1‑118                               CCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGG                                                                                                                                                                     <  5:148195/118‑1                                                                                                       TCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGG                                                                 >  4:257979/1‑146                                                                                                         CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGA                                                             >  2:277213/1‑148                                                                                                         CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGA                                                               <  3:257979/146‑1                                                                                                         CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCAAATGGGCAGGCACAGGCTGTTACTTCTCGTGAGCCGGCGCGCTATGACCGTGCTTGGCCACTTCCCTGCTATTGCCATAACGGGAGA                                                             >  5:342138/1‑148                                                                                                              GGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCA                                                       <  1:277213/149‑1                                                                                                                                                TGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCCGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCG                      >  7:2605/1‑148                                                                                                                                                TGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCG                      >  5:114925/1‑148                                                                                                                                                TGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGA                                                               <  4:221959/107‑1                                                                                                                                                TGTGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGA                                                               >  3:221959/1‑107                                                                                                                                                  TGGGAGCGGGCAAGCCCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAA                   <  2:260108/149‑1                                                                                                                                                                 CCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAATCAGGTCGGCCAG      >  5:54218/1‑147                                                                                                                                                                 CCGCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGACGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAATCAGGTCGGCCAG      >  4:327292/1‑147                                                                                                                                                                   GCAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAATCAGGTCGGCCAGCAGG  >  3:306953/1‑149                                                                                                                                                                                                                                                                                                                         TCTCCCGTTATGGCAATAGCCGGGAAGTGGCCAAGCACGGGCAAAGCGCGCCGGCTCACCAGCAGTAACAGCCTGTGCCGGCCCATTTGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/6019411‑6019248 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctgtgggagcgggcaagcccgcAAATGGGCCGGCACAGGCTGTTACTGCTGGTGAGCCGGCGCGCTTTGCCCGTGCTTGGCCACTTCCCGGCTATTGCCATAACGGGAGATATCCAGGCCTTCGGCACTGATCTGCGGCTTCTTGCGCGCAATCAGGTCGGCCAGCAGG  >  NC_002947/6019324‑6019470

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.