New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3319134 =	49 (0.830)	4 (0.080)	4/232	NT	9.4%	intergenic (‑98/+94)	treSA/PP_2919	trehalose synthase A/LysR family transcriptional regulator
	?	NC_002947	3319193 =	34 (0.650)					intergenic (‑157/+35)	treSA/PP_2919	trehalose synthase A/LysR family transcriptional regulator

ATGCAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGGGAGCGGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/3319296‑3319134 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctgtgggagcgggcGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAGGCCAAC  >  NC_002947/3319193‑3319333                                                                                                                                                                                                                                                                                                                  ATGCAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGC                                                                                                                                                             <  6:175620/149‑1  TGCAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCC                                                                                                                                                            >  2:134693/1‑149   GCAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCT                                                                                                                                                           >  4:231583/1‑149    CAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTG                                                                                                                                                          >  6:81766/1‑149       GCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGG                                                                                                                                                       <  3:92221/149‑1       GCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGG                                                                                                                                                       <  4:251850/149‑1                            GATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCC                                                                                                                                                            <  3:272774/123‑1                            GATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCC                                                                                                                                                            >  4:272774/1‑123                                 GTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGTGCAAATCTTCAGCGGTATGTCCGCCTGT                                                                                                                                                         >  6:285311/1‑121                                 GTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGTGCAAATCTTCAGCGGTATGTCCGCCTGT                                                                                                                                                         <  5:285311/121‑1                                                                                                                 CCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGC                                             >  4:224255/1‑149                                                                                                                       GTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGA                                                                                                            >  2:12552/1‑80                                                                                                                       GTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGA                                                                                                            <  1:12552/80‑1                                                                                                                                          CGGTATGTCCGCCTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGT                    <  3:224255/149‑1                                                                                                                                                      CTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAG        >  2:271193/1‑149                                                                                                                                                      CTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAG        >  7:80269/1‑149                                                                                                                                                      CTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCCCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAG        >  3:212416/1‑149                                                                                                                                                      CTGTGGGAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATAGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAG        >  8:1799/1‑149                                                                                                                                                            GAGCGGGCGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAGGCCAAC  >  3:350926/1‑149                                                                                                                                                                                                                                                                                                                  ATGCAGGCGGTGCGCAATTACTTCCATGATGCGTTTCTGGCACCGCAGCAGTTGTCGGCCCGGCGCTGATCCTGCCTTTGCAGGCCCGGCCTCTTCGCGGGCGCGCCCGCTCCCACAGGTGCAGCGCAAATCTTCAGCGGTATGTCCGCCTGTGGGAGCGGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/3319296‑3319134 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctgtgggagcgggcGCGCCCGCGAAGAGGCCGGGCCTGCAAAGGCAGGATCAGCGCCGGGCCGACAACTGCTGCGGTGCCAGAAACGCATCATGGAAGTAATTGCGCACCGCCTGCATCGCCGGGCTGAATGCCCGTTCCCGGTGCCAGGCCAAC  >  NC_002947/3319193‑3319333

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.