New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4978911 =	42 (0.700)	5 (0.090)	5/250	NT	12.4%	coding (511/786 nt)	flgG	flagellar basal‑body rod protein FlgG
	?	NC_002947	4978950 =	31 (0.550)					coding (472/786 nt)	flgG	flagellar basal‑body rod protein FlgG

CCTTCCACCTGAACTCCGACGGCCAGATCGTCACTGACAACGGCTACGCCCTGGAGCCTGCCATTGTCGTGCCTAACGACGCGCAGACCTTCACCGTTGGCCAGGACGGCACCGTGTCGATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4979066‑4978911 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtgatcgACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCAGGTGGAAGGTACCGTCACGGGTATACGACACGGT  >  NC_002947/4978950‑4979091                                                                                                                                                                                                                                                                                                            CCTTCCACCTGAACTCCGACGGCCAGATCGTCACTGACAACGGCTACGCCCTGGAGCCTGCCATTGTCGTGCCTAACGACGCGCAGACCTTCACCGTTGGCCAGGACGGCACCGTGTCGATCACCACCGCCGGCAACCCGGCTGCACAG                                                                                                                                                       <  3:1423/149‑1   TTCCACCTGAACTCCGACGGCCAGATCGTCACTGACAACGGCTACGCCCTGGAGCCTGCCATTGTCGTGCCTAACGACGCGCAGACCTTCACCGTTGGCCAGGACGGCACCGTGTCGATCACCACCGCCGGCAACCCGGCTGCACAGGT                                                                                                                                                     >  5:91561/1‑149                                                                                                                   TGTCGATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCG                                           <  7:275368/143‑1                                                                                                                   TGTCGATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCG                                           >  8:275368/1‑143                                                                                                                       GATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGATCAGGT                                 >  8:16074/1‑149                                                                                                                        ATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCGACACGCTGCCGTCCTGCACAACGGTCAAGCTCTGCGCGTCGTGAGGCACGACAATGGCAGGCTCCAGGGCGAAGCCGTTATCAGTGACGATCATGCCGTCGCAGAACAGGag                                >  4:56803/1‑147                                                                                                                            CCACCGCCGGCAACCCGGCTGCACAGGTGATCGACACGGTGCCGTCCTGCCCAACGGTGAAGGTCGGCGCGTCGTTAGGCACGGCAATGGCAGGGTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTGAGGTGGAAG                            >  2:99611/1‑149                                                                                                                                                      GTGATCGACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCAGGTGGAAGGTACCGTCACGGGTATACGACACGGT  <  6:167380/149‑1                                                                                                                                                                                                                                                                                                            CCTTCCACCTGAACTCCGACGGCCAGATCGTCACTGACAACGGCTACGCCCTGGAGCCTGCCATTGTCGTGCCTAACGACGCGCAGACCTTCACCGTTGGCCAGGACGGCACCGTGTCGATCACCACCGCCGGCAACCCGGCTGCACAGGTGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4979066‑4978911 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtgatcgACACGGTGCCGTCCTGGCCAACGGTGAAGGTCTGCGCGTCGTTAGGCACGACAATGGCAGGCTCCAGGGCGTAGCCGTTGTCAGTGACGATCTGGCCGTCGGAGTTCAGGTGGAAGGTACCGTCACGGGTATACGACACGGT  >  NC_002947/4978950‑4979091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ 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.