New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3345580	47 (0.800)	3 (0.060)	3/236	NT	6.9%	coding (920/1371 nt)	PP_2942	two‑component system response regulator
	?	NC_002947	= 3345648	38 (0.710)					coding (852/1371 nt)	PP_2942	two‑component system response regulator

TCAAACCCCGTTGCAGCTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAATTTGCCTATGTTGTACAGCGCCGCAGC  >  NC_002947/3345500‑3345791                                                                                                                                                     |                                                                                                                                                tCAAACCCCGTTGCAGCTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATg                                                                                                                                                 >  1:346483/1‑149 (MQ=255)           ttGCAGCTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGggctcaaggg                                                                                                                                       >  2:87681‑M2/1‑139 (MQ=255)               aGCTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGtcat                                                                                                                                   <  3:176743/149‑1 (MQ=255)                 cTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTATAGGTGATGCAGGATCAGGCGCGCGGCATCTTTAATGGGCTCAAGGGtcat                                                                                                                                   >  1:304477/1‑147 (MQ=255)                    aaCGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATcag                                                                                                                                <  2:312448/147‑1 (MQ=255)                    aaCGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATcag                                                                                                                                >  8:284343/1‑147 (MQ=255)                    aaCGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATcag                                                                                                                                >  2:183913/1‑147 (MQ=255)                    aaCGAAGTACACGGCCAGCTTGAGCAAGCGAGCTCCGAACGGGATAGCTTCAACCTTGAGACGTTCGTGTAAACCTCTGCCGTCACAGTGCTACTTGTGATGCAGGATCAGGCGCGCGGCATCTTTCAGTGGATCAAGGGTCATcagca                                                                                                                              >  6:54762/1‑149 (MQ=255)                             cACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCCGCATCTTTCATGGGCTCAACGCTCATCAGCAGCGCTTCAc                                                                                                                     >  1:220684/1‑149 (MQ=255)                                 gCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTg                                                                                                                 <  2:64247/149‑1 (MQ=255)                                     gCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGt                                                                                                             >  5:199684/1‑149 (MQ=255)                                      cTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTg                                                                                                            >  7:189792/1‑149 (MQ=255)                                        tGAGAAAGCTATCTCAGAACGTGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCGAGTGCTCCTTGTTATGCAGTATCAGGCGAGCGGCATCTTTAATGGGCTAAAGGGTAATCAGCAGCGCTTCACTTTGGCGTgg                                                                                                           <  5:54762/148‑1 (MQ=255)                                         gAGCAAGCGAGCGCCGAAGGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCTGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTgg                                                                                                           <  1:360500/147‑1 (MQ=255)                                             aaGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTc                                                                                                     <  2:346483/149‑1 (MQ=255)                                                         aaCGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTgg                                                                                                           >  7:355243/1‑131 (MQ=255)                                                         aaCGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTgg                                                                                                           <  8:355243/131‑1 (MQ=255)                                                                   cTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGcggtcgcggtcg                                                                                  >  2:244743/1‑146 (MQ=255)                                                                   cTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGcggtcgcggtcg                                                                                  <  1:244743/146‑1 (MQ=255)                                                                        cccTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGggctcaagggtgaagctatcccgttcggcgctcgcttgctcaagctggccgtggacttcgttgagctgcaa                                                                          <  4:338503‑M2/149‑72 (MQ=255)                                                                         ccTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGggctcaagggtgaagctatcccgttcggcgctcgcttgctcaagctggccgtggacttcgttgagctgcaac                                                                         <  8:215114‑M2/149‑73 (MQ=255)                                                                         ccTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCAt                                                                          >  3:362136/1‑148 (MQ=255)                                                                           ttGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCaa                                                                       >  1:163553/1‑149 (MQ=255)                                                                              aGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAg                                                                                              <  6:158061/123‑1 (MQ=255)                                                                              aGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAg                                                                                              >  5:158061/1‑123 (MQ=255)                                                                              aGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTg                                                                    <  3:133498/149‑1 (MQ=255)                                                                                      ggggAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAg                                                            <  4:125879/149‑1 (MQ=255)                                                                                       gggAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGGGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAgg                                                           <  7:284343/149‑1 (MQ=255)                                                                                        ggAAACCGCTGCCGTCCGTGTGCTCCTGGTGATGCAGGATCTGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAggg                                                          <  2:220684/149‑1 (MQ=255)                                                                                        ggAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAggg                                                          <  2:208721/149‑1 (MQ=255)                                                                                         gAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAgggg                                                         >  7:40417/1‑149 (MQ=255)                                                                                             ccGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGggctcaagggtgaagctatcccgttcggcgctcgcttgctcaagctggccgtggacttcgttgagctgcaacggggtttgattcttgaacgg                                                     >  7:215114‑M2/1‑57 (MQ=255)                                                                                                cTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGAt                                                  <  8:40417/149‑1 (MQ=255)                                                                                                   ccGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCAt                                               <  7:261594/149‑1 (MQ=255)                                                                                                    cGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATg                                              <  6:199684/149‑1 (MQ=255)                                                                                                    cGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATg                                              <  1:183913/149‑1 (MQ=255)                                                                                                      tCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCt                                            <  2:304477/149‑1 (MQ=255)                                                                                                        ccAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTAt                                          >  6:332991/1‑149 (MQ=255)                                                                                                                       aTGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAAt                            <  5:41462/148‑1 (MQ=255)                                                                                                                        tGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAAttt                          >  4:143357/1‑149 (MQ=255)                                                                                                                         gCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAATTTg                         >  1:156966/1‑149 (MQ=255)                                                                                                                           aGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAggg                                                          >  6:373288/1‑114 (MQ=255)                                                                                                                           aGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAggg                                                          <  5:373288/114‑1 (MQ=255)                                                                                                                                               tttCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAATTTGCCTATGTTGTACAGCGCCGCAg   >  1:59661/1‑149 (MQ=255)                                                                                                                                                ttCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAATTTGCCTATGTTGTACAGCGCCGCAGc  >  7:24611/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                TCAAACCCCGTTGCAGCTCAACGAAGTCCACGGCCAGCTTGAGCAAGCGAGCGCCGAACGGGATAGCTTCACCCTTGAGCCGGTCGGGGAAACCGCTGCCGTCCCAGTGCTCCTGGTGATGCAGGATCAGGCGCGCGGCATCTTTCATGGGCTCAAGGGTCATCAGCAGCGCTTCACTTTGGCGTGGGTAGTCGCGATAGCGGTCGCGGTCGCTGTGCATCAACTGGTCCGAAGGGGCAACGATCATGCTATCCGGCCAACTCAATTTGCCTATGTTGTACAGCGCCGCAGC  >  NC_002947/3345500‑3345791

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.