New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2547980 =	39 (0.720)	4 (0.080)	3/250	NT	10.4%	coding (222/888 nt)	rhtA	threonine/homoserine exporter
	?	NC_002947	2548026 =	32 (0.630)					coding (176/888 nt)	rhtA	threonine/homoserine exporter

GGAAATCGATCGCTCGGCGCGAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCGGACTGAA  >  NC_002947/2547832‑2548128                                                                                                                                                      |                                                                                                                                                     ggAAATCGATCGCTCGGCGCGAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACcaca                                                                                                                                                      >  3:138083/1‑149 (MQ=255)        gatcgCTCGGCGCGAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTgcgc                                                                                                                                                >  2:58268/1‑148 (MQ=255)        gatcgCTCGGCGCGAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCA‑AGTGCCCTGCCGGAGATGCCCACATTgcgc                                                                                                                                                >  4:83613/1‑148 (MQ=255)                  cgcgAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGc                                                                                                                                     <  5:226154/149‑1 (MQ=255)                   gcgAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACAGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGACC‑AGTGCCCTGCAGTAGATGACCACATTGCGCAACGTGTTGGCg                                                                                                                                    >  1:256203/1‑149 (MQ=255)                    cgAGGAGAAGATCGCCCCGGCCAAGGGGTCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGGTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCgg                                                                                                                                   <  5:202758/149‑1 (MQ=255)                      aggagAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGt                                                                                                                                  >  8:150170/1‑148 (MQ=255)                      aggagAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGt                                                                                                                                  <  7:150170/148‑1 (MQ=255)                        gagaAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCAt                                                                                                                               >  3:11776/1‑149 (MQ=255)                            agaTCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACg                                                                                                                                            >  1:310544/1‑132 (MQ=255)                            agaTCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACg                                                                                                                                            <  2:310544/132‑1 (MQ=255)                              aTCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAACAGGAAGTTCATGCCGCCC‑AGTGACATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTAc                                                                                                                         >  4:262598/1‑149 (MQ=255)                                          atcgattcagtccggcgcctccctggccaaaagcatgttcccgatcgtcggcgcacaaggcactaccaccctgcgcctgatcttcgccagcatcatcatgctgcttatATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCacggcg                                                                                                              <  4:78074‑M1/41‑3 (MQ=255)                                          aaCGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCAt                                                                                                                               <  8:118671/131‑1 (MQ=255)                                          aaCGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCAt                                                                                                                               >  7:118671/1‑131 (MQ=255)                                                  ggTGAATTCCAGGGCGACGTCGATACCGATTGGTACCGTTTGAAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAGTATaa                                                                                                     <  7:303558/149‑1 (MQ=255)                                                  agtccggcgcctccctggccaaaagcatgttcccgatcgtcggcgcacaaggcactaccaccctgcgcctgatcttcgccagcatcatcatgctgcttatATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGG‑CGCAAtata                                                                                                      >  3:78074‑M1/101‑148 (MQ=255)                                                     ccggcgcctccctggccaaaagcatgttcccgatcgtcggcgcacaaggcactaccaccctgcgcctgatcttcgccagcatcatcatgctgcttatATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAagc                                                                                                   >  7:179188‑M1/98‑149 (MQ=255)                                                     ccggcgcctccctggccaaaagcatgttcccgatcgtcggcgcacaaggcactaccaccctgcgcctgatcttcgccagcatcatcatgctgcttatATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAagc                                                                                                   >  1:228211‑M1/98‑149 (MQ=255)                                                      aaTTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAagca                                                                                                  <  4:11776/148‑1 (MQ=255)                                                             gggCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCatgatg                                                                                          <  8:63891/149‑1 (MQ=255)                                                               gCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCatgatgat                                                                                        <  1:58268/149‑1 (MQ=255)                                                                 gACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGc                                                                                      >  1:297888/1‑149 (MQ=255)                                                                       gATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCg                                                                                 >  1:277173/1‑148 (MQ=255)                                                                            cGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGAt                                                                            >  1:129656/1‑148 (MQ=255)                                                                                       gTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGggt                                                                >  6:229625/1‑149 (MQ=255)                                                                                               ggCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACgg                                                                                                                <  8:167417/93‑1 (MQ=255)                                                                                               ggCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACgg                                                                                                                >  7:167417/1‑93 (MQ=255)                                                                                                    tataGAAGAGGACGTTCATGCCGCCG‑TGTGCCCTGCCGTAGATGCCCACATTGCGCCTCGTGGTGGAGGTCATGCGTACCCTCCACTGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTATTGCCTtgt                                                   <  2:256203/149‑1 (MQ=255)                                                                                                    tataGAAGAGGAAGTTCATGCCGCCCGAGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTtg                                                    >  1:4757/1‑149 (MQ=255)                                                                                                      taGAAGAGGAAGTTCATGCCGCCC‑AGTGCGATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTgc                                                 >  4:15297/1‑149 (MQ=255)                                                                                                           gagGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCcga                                            >  7:5564/1‑149 (MQ=255)                                                                                                            agGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCcgac                                           >  5:26759/1‑149 (MQ=255)                                                                                                              gAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCcgacga                                         >  7:195205/1‑149 (MQ=255)                                                                                                                        ccgccg‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATTATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACa                                <  3:262598/148‑1 (MQ=255)                                                                                                                        ccgccC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACAt                               <  2:277173/149‑1 (MQ=255)                                                                                                                                gTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTg                        <  2:4757/149‑1 (MQ=255)                                                                                                                                 tGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTgg                       <  4:155223/149‑1 (MQ=255)                                                                                                                                   ccATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGc                      <  2:129656/148‑1 (MQ=255)                                                                                                                                     aTGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAg                   <  2:297888/149‑1 (MQ=255)                                                                                                                                          gTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAgg              >  2:266499/1‑149 (MQ=255)                                                                                                                                               tGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCg         >  2:143788/1‑149 (MQ=255)                                                                                                                                               tGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCg         <  8:195205/149‑1 (MQ=255)                                                                                                                                                gACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCg         >  8:105177/1‑148 (MQ=255)                                                                                                                                                   cacaTTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCGGACt     >  8:152525/1‑149 (MQ=255)                                                                                                                                                      ATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCGGACTGaa  >  3:15297‑M1/1‑149 (MQ=255)                                                                                                                                                      |                                                                                                                                                     GGAAATCGATCGCTCGGCGCGAGGAGAAGATCGCCACGGCCAACGGGCCGGTGAATTCCAGGGCGACGGCGATACCGATTGGTACCGTTTGCAGGGCCATATAGAAGAGGAAGTTCATGCCGCCC‑AGTGCCATGCCGTAGATGACCACATTGCGCAACGTGTTGGCGGTCATGCGTACCCGCCACGGGCGCAATATAAGCAGCATGATGATGCTGGCGAAGATCAGGCGCAGGGTGGTAGTGCCTTGTGCGCCGACGATCGGGAACATGCTTTTGGCCAGGGAGGCGCCGGACTGAA  >  NC_002947/2547832‑2548128

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.