New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3383565	58 (0.910)	20 (0.310)	17/266	NT	29.6%	coding (501/546 nt)	PP_2985	hypothetical protein
	?	NC_002947	= 4950858	37 (0.580)					intergenic (‑8/+149)	fliL/fliK	flagellar protein FliL/flagellar hook‑length control protein FliK

CAAACCTTCCTCAATGGATGGCTGAAGCGATTGGGCGCGAAGCAGTCTTTGCTGAGCAGGGCTTCTAATCTACTCGTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3383429‑3383565 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATGCACAAGAGC  <  NC_002947/4950858‑4950719                                                                                                                                                                                                                                                                                       CAAACCTTCCTCAATGGATGGCTGAAGCGATTGGGCGCGAAGCAGTCTTTGCTGAGCAGGGCTTCTAATCTACTCGTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGG                                                                                                                                  >  2:121368/1‑149           TCAATGGATGGCTGAAGCGATTGGGCGCGAAGCAGTCTTTGCTGAGCAGGGCTTCTAATCTACTCGTTTAAATACAAAAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCG                                                                                                                         >  2:181626/1‑148                    GGCTGAAGCGATTGGGCGCGAAGCAGTCTTTGCTGAGCAGGGCTTCTAATCTACTCGTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCA                                                                                                                >  8:72640/1‑148                        gatGCGATTGGGCGCGAAGCAGGCATTGCTGAGCAGGCGTTCTAATCTACTCGTTTAAATACAATAGCTTAGAGAAGGAATGTCCTAAGTTTTGCATTATCTCGGCATGACCCGTTATTGGCTGTGCGAAGAGCGACGCAGTCAAAGAC                                                                                                           >  4:102211/4‑149                                                                    ATCTACTCGTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGT                                                               <  7:72640/149‑1                                                                            GTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGCCAAAGACCCCGCCACTAAAGGCATACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGT                                                       >  3:288540/1‑149                                                                                 AATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTG                                                  <  1:121368/149‑1                                                                                 AATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTG                                                  >  5:200634/1‑149                                                                                           CTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAA                                                                                                                              >  5:204581/1‑63                                                                                           CTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAA                                                                                                                              <  6:204581/63‑1                                                                                               GAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTC                                    >  2:188694/1‑149                                                                                               GAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTC                                    >  1:63363/1‑149                                                                                                  AACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGT                                 >  6:46861/1‑149                                                                                                      AATGTCCTAATTTTTGCCTTATCTCGGCATGACCGCTTATTGGCATGGCGAAGAGCGAAGCAGGCAAAGACCCCGCCACTAAAGGCAAACTCACGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGC                             <  3:102211/149‑1                                                                                                                  TTTGCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTT                  <  6:19474/148‑1                                                                                                                     GCCTTATCTCGGCATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCAT               <  1:181626/148‑1                                                                                                                                 CATGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATGCACAAGAGC  <  5:46861/149‑1                                                                                                                                   TGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATGCACAAGAGC  >  1:215313/1‑147                                                                                                                                   TGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATG           <  1:9359/138‑1                                                                                                                                   TGACCCCTTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATG           >  2:9359/1‑138                                                                                                                                                                                                                                                                                       CAAACCTTCCTCAATGGATGGCTGAAGCGATTGGGCGCGAAGCAGTCTTTGCTGAGCAGGGCTTCTAATCTACTCGTTTAAATACAATAGCTTAGAGAACGAATGTCCTAATTTTTGCCTTATCTCGGCATGACCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/3383429‑3383565 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTATTGGCATGGCGAAGAGCGAAGCAGTCAAAGACCCCGCCACTAAAGGCAAACTCAAGCTGATCCTGCTGGCTGTCGTCGGCCTGTTGCTGGCGATCGGCCTTTCGGTGGGCGCTACCTGGTTCATCATGCACAAGAGC  <  NC_002947/4950858‑4950719

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.