New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 614297	20 (0.380)	5 (0.130)	4/204	NT	23.1%	intergenic (‑116/+62)	dxs/ispA	1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase
	?	NC_002947	= 614313	18 (0.450)					intergenic (‑132/+46)	dxs/ispA	1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase

GCGGTCGAGCAACGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/614122‑614297 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccctgtaggatcgggtttacccgcgaatgcgATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCTGATGCCCACGACGTTT  <  NC_002947/614313‑614167                                                                                                                                                                                                                                                                                                                                     GCGGTCGAGCAACGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAGAGTGCCCATTCGACCACAGGTTACGCGGCCCCCT                                                                                                                                                                                <  4:159798/149‑1  CGGTCGAGCAACGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTG                                                                                                                                                                               <  5:325865/149‑1       gcGCAACGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGA                                                                                                                                                                          >  5:225669/3‑149             CGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGT                                                                                                                                                                    <  2:260778/149‑1                   GACCGTGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGATTACGCGGCCCCCTGTAGGATCGGGTTTACCC                                                                                                                                                              >  4:146855/1‑149                    ACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCC                                                                                                                                                              <  6:225669/148‑1                                             GAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAAT                                                                                                                                                        >  5:72466/1‑129                                             GAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAAT                                                                                                                                                        <  6:72466/129‑1                                                      ttGGCATGAGGCGATTCGTTATATGTGTGTGAAGACGCGGGAGTTTACCCCATTGTGGGAAATGTGCCCATTCTACGACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCG                                                                                                                           <  3:146855/147‑1                                                        GGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGTCCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGG                                                                                                                          <  3:263867/148‑1                                                         GCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAATAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGG                                                                                                                                                                     <  1:229047/104‑1                                                         GCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGG                                                                                                                                                                     >  2:229047/1‑104                                                         GCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGG                                                                                                                                                                     >  2:224503/1‑104                                                         GCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGG                                                                                                                                                                     <  1:224503/104‑1                                                                       GTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGG                                                                                                                          <  2:228463/133‑1                                                                       GTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGG                                                                                                                          >  1:228463/1‑133                                                                                                  TTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGC                                                                                                                            <  8:102484/104‑1                                                                                                                                                           ATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAATCCCGATCCTACAGGGGGCCGCGTAACCTGTGGTGGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCAAACACCTATAACGACTg                      >  3:181135/1‑148                                                                                                                                                           ATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCG                                               <  8:73843/124‑1                                                                                                                                                           ATCGGGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCG                                               >  7:73843/1‑124                                                                                                                                                               GGTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCT                  >  5:41804/1‑149                                                                                                                                                                GTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAA                            <  7:71538/138‑1                                                                                                                                                                GTTTACCCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAA                            >  8:71538/1‑138                                                                                                                                                                      CCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCTGATGCC            >  5:146453/1‑148                                                                                                                                                                      CCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAAC                           <  6:14979/133‑1                                                                                                                                                                      CCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAAC                           >  5:14979/1‑133                                                                                                                                                                      CCGCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGG                                                         >  7:155444/1‑103                                                                                                                                                                        GCGAATGCGATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCTGATGCCCAC         >  1:245278/1‑149                                                                                                                                                                                GATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCTGATGCCCACGACGTTT  >  8:156027/1‑148                                                                                                                                                                                                                                                                                                                                     GCGGTCGAGCAACGGCGTGACCGGGCGTTCGCGGGGGATCTCTTGAAACGTCGTGGGCATCAGGCGAGTCGTTATAGGTGTGTGAAGACGCGGCAGTTTACCCCATTGTGGGAAAAGTGCCCATTCGACCACAGGTTACGCGGCCCCCTGTAGGATCGGGTTTACCCGCGAATGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/614122‑614297 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccctgtaggatcgggtttacccgcgaatgcgATCTTGAATTTGCCGACGCATTCGCGGGTAAACCCGATCCTACAGGGGGCCGCGTAACCTGTGGTCGAATGGGCACTTTTCCCACAATGGGGTAAACTGCCGCGTCTTCACACACCTATAACGACTCGCCTGATGCCCACGACGTTT  <  NC_002947/614313‑614167

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.