New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 6050074	38 (0.900)	3 (0.070)	3/250	NT	7.9%	coding (936/2109 nt)	spoT	bifunctional (p)ppGpp synthase/hydrolase
	?	NC_002947	= 6050143	33 (0.810)					coding (1005/2109 nt)	spoT	bifunctional (p)ppGpp synthase/hydrolase

CCGCATCATCGTCGACAAGGTTGACACCTGTTACCGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGCGCCCGCCAGTGGGTCAAG  >  NC_002947/6049927‑6050221                                                                                                                                                     |                                                                                                                                                    ccGCATCATCGTCGACAAGGTTGACACCTGTTACCGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGC                                                                                                                                                     <  6:32165‑M1/148‑1 (MQ=255)                        acacCTGTTACCGCGTGCTCGGCGCCGTACTCAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATc                                                                                                                             <  4:179465/149‑1 (MQ=255)                          acCTGTTACCGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATc                                                                                                                             >  7:91261/1‑147 (MQ=255)                          acCTGTTACCGCGTGCTCGGCGCCGTACACAACCTGTACAACCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCTTTGCACACCACCCTCTACGCAATGCACGCAGTGCCCATCGAAATcc                                                                                                                            >  4:147866/1‑148 (MQ=255)                               ttACCGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTc                                                                                                                      <  4:66317/149‑1 (MQ=255)                                  ccGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCACGGCCAACGGCTACCAGACGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCAGCGAAATCCAGATTCGCa                                                                                                                   >  6:111307/1‑149 (MQ=255)                                     cgTGCTCGGCGCCGTACACAACCTGTACAAGCCGCTTGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCAcc                                                                                                                 >  1:40145/1‑149 (MQ=255)                                     cgTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTg                                                                                                                                         >  6:27190/1‑124 (MQ=255)                                     cgTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTg                                                                                                                                         >  6:23215/1‑124 (MQ=255)                                     cgTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTg                                                                                                                                         <  5:27190/124‑1 (MQ=255)                                     cgTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTg                                                                                                                                         <  5:23215/124‑1 (MQ=255)                                            ggCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAAt                                                                                                         <  8:91261/149‑1 (MQ=255)                                              cgcCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATgg                                                                                                       <  3:188277/149‑1 (MQ=255)                                                  gTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGATCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAaga                                                                                                   <  3:143359/149‑1 (MQ=255)                                                      acaACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATg                                                                                               <  2:40145/149‑1 (MQ=255)                                                        aaCCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACAACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGc                                                                                             >  4:134996/1‑149 (MQ=255)                                                              tACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAgaga                                                                                                 <  8:234575/139‑1 (MQ=255)                                                              tACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAgaga                                                                                                 >  7:234575/1‑139 (MQ=255)                                                                 aaGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCgatgccgttgttggccatctcttccatttcgcgggtgcgaatctggatttcgatgggcacgccgt                                                                                    >  6:119014‑M1/1‑84 (MQ=255)                                                                  aGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGAt                                                                                                                        >  1:182645/1‑112 (MQ=255)                                                                  aGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGAt                                                                                                                        <  2:182645/112‑1 (MQ=255)                                                                   gCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCgatgccgttgttggccatctcttccatttcgcgggtgcgaatctggatttcgatgggcacgccgtgc                                                                                  <  6:231410‑M1/149‑68 (MQ=255)                                                                      gC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGc                                                                                             >  5:14629/1‑135 (MQ=255)                                                                      gC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGc                                                                                             <  6:14629/135‑1 (MQ=255)                                                                           cccGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATcgccgc                                                                           <  3:388/149‑1 (MQ=255)                                                                              ggACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGaa                                                                                                     >  7:62690/1‑120 (MQ=255)                                                                              ggACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGaa                                                                                                     <  8:62690/120‑1 (MQ=255)                                                                               gACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCgatgccgttgttggccatctcttccatttcgcgggtgcgaatctggatttcgatgggcacgccgtgcatgccgaacag                                                                       <  5:119014‑M1/149‑79 (MQ=255)                                                                               gACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCAc                                                                       <  6:113568/149‑1 (MQ=255)                                                                                    ttCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCaacaac                                                                                      >  5:17709/1‑129 (MQ=255)                                                                                    ttCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCaacaac                                                                                      <  6:17709/129‑1 (MQ=255)                                                                                               cATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCa                                                        <  3:134996/148‑1 (MQ=255)                                                                                                          ccAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGag                                            >  3:9168/1‑149 (MQ=255)                                                                                                                       cTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCa                               <  3:126485/149‑1 (MQ=255)                                                                                                                        tACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCcaa                                                                                          <  2:65974/89‑1 (MQ=255)                                                                                                                                gTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCAcgcgc                      >  1:197254/1‑149 (MQ=255)                                                                                                                                    cacaCCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACgcgcgcgc                  >  2:168790/1‑149 (MQ=255)                                                                                                                                      caccacCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGcgccc                <  2:149157/149‑1 (MQ=255)                                                                                                                                         caccCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGcgcccgc              >  7:13466/1‑148 (MQ=255)                                                                                                                                         caccCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGcgcccgc              >  5:150820/1‑148 (MQ=255)                                                                                                                                          accCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACACGCGcgcccgc              >  4:41395/1‑147 (MQ=255)                                                                                                                                             cTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCgccgaacagggtggtgtgcaacgactggtagccgttggccttggggatcgcgatgtaatccttgaagcgtc         <  5:119014‑M2/149‑72 (MQ=255)                                                                                                                                               gTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGCGCCCGCCAGTggg       >  6:79681/1‑149 (MQ=255)                                                                                                                                                    gCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGCGCCCGCCAGTGGGTCAAg  <  5:79681/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CCGCATCATCGTCGACAAGGTTGACACCTGTTACCGCGTGCTCGGCGCCGTACACAACCTGTACAAGCCGC‑TGCCCGGACGCTTCAAGGATTACATCGCGATCCCCAAGGCCAACGGCTACCAGTCGTTGCACACCACCCTGTTCGGCATGCACGGCGTGCCCATCGAAATCCAGATTCGCACCCGCGAAATGGAAGAGATGGCCAACAACGGCATCGCCGCGCACTGGCTGTACAAGTCAAACGACGACGAGCAGCCCAAGGGCAGCCACGCGCGCGCCCGCCAGTGGGTCAAG  >  NC_002947/6049927‑6050221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.