New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 652785	29 (1.290)	39 (2.040)	11/224	0.4	76.0%	coding (1961/1962 nt)	ctpL	methyl‑accepting chemotaxis protein CtpL
	?	NC_002947	= 4813153	0 (0.000)					intergenic (‑268/‑287)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2

ATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCA  >  NC_002947/4813032‑4813234                                                                                                                          |                                                                                  aTGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGTgagatcgagcgccg                                                                     <  1:422757‑M2/136‑15 (MQ=255)     gCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccg                                                                 <  1:78041‑M2/136‑19 (MQ=255)             ggcgctTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGTATTTTCAGCGCCGGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgc                                                         >  1:446683‑M2/2‑110 (MQ=255)              gcgcTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgct                                                        >  2:223032‑M2/1‑109 (MQ=255)                       cGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGATAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggta                                               >  1:51150‑M2/1‑100 (MQ=255)                         ggTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgcttcgcggctaaa                                             <  1:541948‑M2/136‑39 (MQ=255)                                   tGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctccta                                   <  2:359445‑M2/136‑49 (MQ=255)                                           ggTTTTCTGCGCCTGGGTGGTTTTCGCCGGGGGTTTTTCTGCGCCTGGGTGGTGTTCGCCGGGAGTGTTTCAGCGCCTGGgagatcgtgcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtt                           >  2:541948‑M2/1‑80 (MQ=255)                                            gTTTTCAGCGCCTGGGAGGTGTTGGCGGGGGGATTTTCAGCGCCTGGGAGGTGTGCGCCGGGAGAGTTTCAGCGCCTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgttt                          >  2:455914‑M2/1‑79 (MQ=255)                                                        tttgaggTGTTCGCCGGGGGATTTACAGCGCCCGGTAGGTGTTCGCCGGGATAGTTTCAGCGCCTGGgagatcgcgcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:141111‑M2/4‑67 (MQ=255)                                                                    gCCGGGGGATTTTCAGCGCCTGGGAGGCGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  2:464937‑M2/124‑70 (MQ=255)                                                                    gCCGGGGGATTTTCAGCGCCTGGGAGGCGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  1:464937‑M2/1‑55 (MQ=255)                                                                    gCCGGGGGATTTTCAGCGCCCGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctaagtttgtttagggccaattattcctgcgggatt  <  1:141111‑M2/136‑82 (MQ=255)                                                                                                 tttGCCGGAGGATTTTCAGCGCCTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:430522‑M2/95‑70 (MQ=255)                                                                                                 tttGCCGGAGGATTTTCAGCGCCTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:430522‑M2/1‑26 (MQ=255)                                                                                                                     gcCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattatt             >  2:117325‑M2/1‑6 (MQ=255)                                                                                                                     gcCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattatt             <  1:117325‑M2/76‑71 (MQ=255)                                                                                                                     gcCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  2:3133‑M2/75‑70 (MQ=255)                                                                                                                     gcCTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  1:3133‑M2/1‑6 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:358246‑M2/74‑70 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:389371‑M2/1‑5 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:303530‑M2/74‑70 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:358246‑M2/1‑5 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:303530‑M2/1‑5 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  2:425626‑M2/74‑70 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:389371‑M2/74‑70 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:64522‑M2/74‑70 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:64522‑M2/1‑5 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  1:425626‑M2/1‑5 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaatta               <  1:395098‑M2/73‑69 (MQ=255)                                                                                                                      ccTGTgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaatta               >  2:395098‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattattc            >  1:233409‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattattc            <  2:233409‑M2/76‑72 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:543312‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:497504‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:66910‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:300955‑M2/74‑70 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              >  2:300955‑M2/1‑5 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:66910‑M2/74‑70 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:543312‑M2/74‑70 (MQ=255)                                                                                                                      ccTGGgagatcgagcgccgcccgcgcggcgcttcgcgggtaaacccgctcctacgtttgtttcgggccaattat              <  1:497504‑M2/74‑70 (MQ=255)                                                                                                                          |                                                                                  ATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCA  >  NC_002947/4813032‑4813234

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.