New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4810146	6 (0.360)	10 (0.660) +CGGCGCTTCGCGG	7/260	0.8	50.0%	intergenic (‑288/‑267)	PP_4234/dsbD‑II	bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2
	?	NC_002947	4947183 =	16 (0.960)					intergenic (+576/+222)	PP_5673/flhB	D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein

ATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGG  >  NC_002947/4947039‑4947307                                                                                                                                                 |                                                                                                                             tcgcgctttggcgggtaggtgtttggcgggaggttttcagcgcctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcgggtaaac                                                                                                                         <  1:190989‑M2/6‑3 (MQ=255)   gCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAgctc                                                                                                                       <  2:124236/150‑1 (MQ=255)       aaCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCACCTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCTTgctcgcga                                                                                                                   <  1:302488/150‑3 (MQ=255)        aCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCTTgctcgcgat                                                                                                                  <  2:255629/150‑4 (MQ=255)          tttGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTa                                                                                                                <  2:147033/150‑1 (MQ=255)                     gggggCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCg                                                                                                     <  1:302484/150‑1 (MQ=255)                      tttggcgggaggttttcagcgcctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCgg                                                                                                    <  2:74379‑M2/27‑1 (MQ=255)                      ggggCGCCTGCGGCTGGCATTGCTAGATGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCgg                                                                                                    <  2:63066/150‑1 (MQ=255)                       ttggcgggaggttttcagcgcctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCggg                                                                                                   >  1:338314‑M2/123‑150 (MQ=255)                                 ggCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTc                                                                                         <  2:140056/150‑1 (MQ=255)                                    tGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTg                                                                                      >  2:348732/1‑150 (MQ=255)                                     tcagcgcctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagtgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGc                                                                                     <  1:371574‑M2/42‑1 (MQ=255)                                     ggCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGc                                                                                     <  1:318673/150‑1 (MQ=255)                                     ggCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGc                                                                                     <  1:318676/150‑1 (MQ=255)                                       agcgcctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCgg                                                                                   <  2:338314‑M2/44‑1 (MQ=255)                                         ttGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGa                                                                                 <  1:206175/150‑1 (MQ=255)                                           cctgggaggtgttcgccgggggattttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCGGGAtt                                                                               <  1:311850‑M2/48‑1 (MQ=255)                                                         aaCTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGcc                                                                 >  2:208795/1‑150 (MQ=255)                                                              tgtgATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTcgc                                                            <  1:208795/150‑1 (MQ=255)                                                                  ttttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCGGGATTTGCGCGCgaccgccttggggcat                                                        <  1:23911‑M2/71‑8 (MQ=255)                                                                  ttttcagcgcctgggaggtgttcgccgggagagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCGGGATTTGCGCGCgaccgccttggggcat                                                        <  1:345752‑M2/71‑8 (MQ=255)                                                                                               agagtttcagcgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCGGGATTTGCGCGCGACCGCCTTGGGGCATGTCTCGATATCGCGTCGTACAAACAAGGc                           <  1:146414‑M2/100‑1 (MQ=255)                                                                                                   ttttGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTc                       <  1:348732/150‑1 (MQ=255)                                                                                                         cgcctgggagatcgagcgccgcccgcgcggcgcttcgcggGTAAACCCGCTCCTACGTTTGTTTCGGGCCAATTATTCCTGCGGGATTTGCGCGCGACCGCCTTGGGGCATGTCTCGATATCGCGTCGTACAAACAAGGCGGTcgcgcgc                 <  1:263536‑M2/110‑1 (MQ=255)                                                                                                                   gcgatgcgcCGCGCGGGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAGACAAGGCGGTCGCGCGCGCCGGGcaca       >  2:63343/6‑150 (MQ=255)                                                                                                                        gcgcCGCGCGGGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACCCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACACACAAGGCGGTCGCGCGCGCCGGGCACaggagg  <  1:63343/150‑1 (MQ=255)                                                                                                                                                 |                                                                                                                             ATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGAGCGCCGCCCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGG  >  NC_002947/4947039‑4947307

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ 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.