New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5984469 =	37 (1.170)	9 (0.340)	6/220	2.5	27.1%	intergenic (+9/+80)	PP_5242/ycaC‑II	GAF domain‑containing sensor histidine kinase/putative hydrolase
	?	NC_002947	5984535 =	18 (0.690)					intergenic (+75/+14)	PP_5242/ycaC‑II	GAF domain‑containing sensor histidine kinase/putative hydrolase

GCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAGTTCGCAGGCCACCGAGAACCAGTTC  >  NC_002947/5984391‑5984684                                                                                                                                                 |                                                                                                                                                      gCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACa                                                                                                                                                  <  2:595217/150‑1 (MQ=255)  cTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCCGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCCGGTTTACCCGCGAAGAGGCCAGTACAg                                                                                                                                                 <  1:252979/150‑1 (MQ=255)                            tGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCt                                                                                                                       <  1:393265/150‑1 (MQ=255)                                          gtgtCAGTCTGCCTTTGAGTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcat                                                                                                         >  1:591773/1‑150 (MQ=255)                                                           aaTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                                                                        <  2:365332/150‑1 (MQ=255)                                                           aaTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                                                                        <  2:200150/150‑1 (MQ=255)                                                           aaTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                                                                        >  1:236903/1‑150 (MQ=255)                                                            aTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTggg                                                                                       <  2:236903/150‑1 (MQ=255)                                                               aCGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCAAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGAt                                                                                    >  2:550551/1‑150 (MQ=255)                                                                   aTAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTCTGCATTGACGGGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGc                                                                                <  2:671588/150‑1 (MQ=37)                                                                      gCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGc                                                                             >  1:317392/1‑150 (MQ=255)                                                                        cTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAAAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCAGCAGGTTGCGGTAGTTGGGGATACGCTGCGa                                                                           >  2:148444/1‑150 (MQ=255)                                                                                GCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGt                                                                   >  1:67563‑M1/1‑150 (MQ=255)                                                                                 CCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                                                                       >  2:621062‑M1/1‑113 (MQ=255)                                                                                 CCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                                                                       <  1:621062‑M1/113‑1 (MQ=255)                                                                                        GCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGGTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGAAGAGTGCCCAGc                                                           <  2:658031‑M1/150‑1 (MQ=255)                                                                                                ACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGAt                                                   >  1:375908‑M1/1‑150 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccGGCACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGt                                                 >  1:149781‑M2/48‑150 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCt                                                                                                               >  2:619957‑M2/48‑88 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCt                                                                                                               <  1:619957‑M2/41‑1 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCt                                                                               <  1:426974‑M2/73‑1 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCt                                                                               >  2:426974‑M2/48‑120 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCg                                                     <  1:43081‑M2/99‑1 (MQ=255)                                                                                                  ccgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCg                                                     >  2:43081‑M2/48‑146 (MQ=255)                                                                                                   cgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGa                                                                                                                                 <  2:158024‑M2/23‑1 (MQ=255)                                                                                                   cgcccctacagccgaccgtaggagcgggtttacccgcgaagaggccAGTACAGGTTTACATCAGCGCGa                                                                                                                                 >  1:158024‑M2/47‑69 (MQ=255)                                                                                                         tACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTgcg                                          >  2:653294/1‑150 (MQ=255)                                                                                                         tACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACAGGTTCTGGGGGCCAGCGCTGCGGAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCCACAGCAGGTTACCCAGCCCTTCGCTGTCGTTgcc                                          >  2:71589/1‑149 (MQ=255)                                                                                                              tCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGt                                     >  2:104135/1‑150 (MQ=255)                                                                                                                 gCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTcgc                                  >  2:772553/1‑150 (MQ=255)                                                                                                                        gggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCgg                                <  2:218138/145‑1 (MQ=255)                                                                                                                        gggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCgg                                >  1:218138/1‑145 (MQ=255)                                                                                                                                    ccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAGTTCGCAGGCCAc               >  2:562402‑M2/14‑150 (MQ=255)                                                                                                                                    ccgcgaagaggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAGTTCGCAGGCCAc               >  2:695156‑M2/14‑150 (MQ=255)                                                                                                                                            aggccAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGTGGTGCAGGTCGCAGGCCACCTAGAAcc       >  1:27315‑M2/6‑150 (MQ=255)                                                                                                                                                 aGTACAGGTTTACCTCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAGTTCGCAGGCCACCGAGAACCAGTtc  <  1:104135/150‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                      GCTGCAGGCGCTGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAGTTCGCAGGCCACCGAGAACCAGTTC  >  NC_002947/5984391‑5984684

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.