New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4968256 =	47 (0.950)	4 (0.090)	4/240	NT	8.9%	coding (1987/2064 nt)	fliC	flagellin
	?	NC_002947	4968293 =	38 (0.820)					coding (1950/2064 nt)	fliC	flagellin

GACTCCCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4968409‑4968256 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcagcaaaGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGGGAACGCTGGGAGTCCAGCGACTGCATGGCACCATCCAGAACCTG  >  NC_002947/4968293‑4968439                                                                                                                                                                                                                                                                                                               GACTCCCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCA                                                                                                                                                          <  5:307278/149‑1      CCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAA                                                                                                                                                     >  1:221336/1‑149      CCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAA                                                                                                                                                     >  7:76737/1‑149      CCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAA                                                                                                                                                     >  8:35859/1‑149      CCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGAAGAAACTGCGGAGCTGAGCAAGCCGCAAA                                                                                                                                                     >  8:299434/1‑149                                    CCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGC                                                                                                                                                        >  5:247457/1‑116                                    CCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGC                                                                                                                                                        <  6:247457/116‑1                                                                                                       ATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAG                                                                                                                                                            <  5:203810/45‑1                                                                                                       ATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAG                                                                                                                                                            >  6:203810/1‑45                                                                                                                  CGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAAGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGG                                              <  1:2097/144‑1                                                                                                                  CGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAAGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGG                                              >  2:2097/1‑144                                                                                                                   GACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAAGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGGGAACGC                                        >  6:3912/1‑149                                                                                                                         GCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAAGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGGGAACGCTGGGA                                   <  5:3912/148‑1                                                                                                                                                         AAGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGGGAACGCTGGGAGTCCAGCGACTGCATGGCACCATCCAGAACCTG  <  6:307278/149‑1                                                                                                                                                         AAGTCGGCATCCTGGATACGACTACGCGCTGCGGTGGAGTATTCCGAGATCGACTGCAGGTTAGCGACACTGCTATCGAAACGGTTCAGCACTGCACCCAGCTGGGAACGCTGGGAGTCCAGCGACTGCTTGGCACCATCCAGAAACTG  >  5:106199/1‑149                                                                                                                                                                                                                                                                                                               GACTCCCAGCGTTCCCAGCTGGGTGCAGTGCAGAACCGTTTCGATAGCACTGTCGCTAACCTGCAGTCGATCTCGGAAAACTCCACCGCAGCCCGTAGTCGTATCCAGGATGCCGACTTTGCTGCCGAAACTGCGGAGCTGAGCAAGCAGCAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4968409‑4968256 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcagcaaaGTCGGCATCCTGGATACGACTACGGGCTGCGGTGGAGTTTTCCGAGATCGACTGCAGGTTAGCGACAGTGCTATCGAAACGGTTCTGCACTGCACCCAGCTGGGAACGCTGGGAGTCCAGCGACTGCATGGCACCATCCAGAACCTG  >  NC_002947/4968293‑4968439

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.