New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4613812	51 (0.970)	4 (0.080)	4/234	NT	9.0%	coding (183/4593 nt)	PP_4085	rhs family protein
	?	NC_002947	= 4613881	34 (0.700)					coding (252/4593 nt)	PP_4085	rhs family protein

CACCGCGGCCGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCACTGGCC  >  NC_002947/4613737‑4614020                                                                                                                                                 |                                                                                                                                            cACCGCGGCCGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcg                                                                                                                                         >  4:237804‑M2/1‑145 (MQ=255)  aCCGCGGCCGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcga                                                                                                                                        <  6:41936‑M2/149‑6 (MQ=255)      cgGCCGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcgacgcc                                                                                                                                    >  1:276254‑M2/1‑140 (MQ=255)         ccGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCAtc                                                                                                                                 <  8:134696/149‑1 (MQ=255)         ccGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCAt                                                                                                                                  >  8:236797/1‑148 (MQ=255)                     ccATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGc                                                                                                                     <  5:41936/149‑1 (MQ=255)                     ccATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGc                                                                                                                     <  7:236797/149‑1 (MQ=255)                       aTCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGa                                                                                                                   >  5:262765/1‑149 (MQ=255)                           gCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCttt                                                                                                                        <  2:333761/140‑1 (MQ=255)                           gCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCttt                                                                                                                        >  1:333761/1‑140 (MQ=255)                                 ccGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTg                                                                                                                      <  6:187511/136‑1 (MQ=255)                                 ccGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTg                                                                                                                      >  5:187511/1‑136 (MQ=255)                                 ccGAGGTTGGCACCGTAGCCACTGGAGGTGCCGCTGGCGTCGCCATCGCCGCAGACGCCGGTGTGGCAGTACGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTCTCGTCCACGCACTCTCCAGCTTATGCGACAGCCTTgg                                                                                                          >  8:117952/1‑148 (MQ=255)                                   gTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCaa                                                                                                       >  7:193593/1‑149 (MQ=255)                                             ccGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGAc                                                                                             >  2:60577/1‑149 (MQ=255)                                                  gCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGATCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGc                                                                                         <  8:193593/148‑1 (MQ=255)                                                     aCTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGa                                                                                     >  5:204926/1‑149 (MQ=255)                                                            gTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTAc                                                                              <  6:262765/149‑1 (MQ=255)                                                                ggCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcgacgccagccgcaccgccagtggctacggtgccaaccacggccaagctgatggctgcggcgacg                                                                          <  8:54616‑M2/149‑68 (MQ=255)                                                                  cTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcgacgccagccgcaccgccagtggctacggtg                                                                                                           >  4:262114‑M2/1‑80 (MQ=255)                                                                  cTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcgacgccagccgcaccgccagtggctacggtg                                                                                                           <  3:262114‑M2/114‑35 (MQ=255)                                                                     gCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATc                                                                     <  1:171089/149‑1 (MQ=255)                                                                           ccATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCga                                                                   <  7:113865/145‑1 (MQ=255)                                                                           ccATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCga                                                                   >  8:113865/1‑145 (MQ=255)                                                                                gccgcAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTg                                                                                                <  4:152791/111‑1 (MQ=255)                                                                                gccgcAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTg                                                                                                >  3:152791/1‑111 (MQ=255)                                                                                   gcAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAAc                                                       >  5:58087/1‑149 (MQ=255)                                                                                      gTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGG‑AAAATCGAGAGCGGGTCAACCAAt                                                   <  1:60577/149‑1 (MQ=255)                                                                                       tCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAAt                                                   <  4:264849/149‑1 (MQ=255)                                                                                       tCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAAt                                                   >  3:264849/1‑149 (MQ=255)                                                                                         gcgGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCggcgacgccagccgcaccgccagtggctacggtgccaaccacggccaagctgatggctgcggcgacggccgcggtggccgctgcatagata                                                  >  7:54616‑M2/1‑57 (MQ=255)                                                                                         gcgGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAAt                                                   <  7:22817/147‑1 (MQ=255)                                                                                         gcgGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAAt                                                   >  8:22817/1‑147 (MQ=255)                                                                                             gtgtGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTc                                             <  5:328919/149‑1 (MQ=255)                                                                                               gttgCAGTCGGAGCAGTGAGCACCCTTTCCTTCGGATAAGACCAGACTGTCGGCGACGCCATCTGCAGCTTTTGCTACAGCCTTGGCAACAGCGTCGACTCGACCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCAt                                           <  7:117952/146‑1 (MQ=255)                                                                                                  gCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTTTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACGAATGTGCTCATTaa                                        <  6:193041/149‑1 (MQ=255)                                                                                                    aGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACa                                      <  6:204926/149‑1 (MQ=255)                                                                                                                  gCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTgcg                        >  2:335621/1‑149 (MQ=255)                                                                                                                      ccTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTgcgcgcg                    >  7:83397/1‑149 (MQ=255)                                                                                                                                   gAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCAc       >  3:242341/1‑149 (MQ=255)                                                                                                                                   gAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCAc       >  6:50514/1‑149 (MQ=255)                                                                                                                                   gAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCAc       <  5:50514/149‑1 (MQ=255)                                                                                                                                         cAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCACTGGcc  >  8:1366/1‑148 (MQ=255)                                                                                                                                                 |                                                                                                                                            CACCGCGGCCGTCGCCGCAGCCATCAGCTTGGCCGTGGTTGGCACCGTAGCCACTGGCGGTGCGGCTGGCGTCGCCATCGCCGCAGTCGCGGGTGTGGCAGTCGGAGCAGTGAGCACCCTTTCCGTCGGCGAAGACCAGACTGTCGGCGACGCCATCTCCAGCTTTTGCGACAGCCTTGGCAACAGCGTGGACTCGCCCGATCCCTACGGAAAAATCGAGAGCGGGTCAACCAATGTGCTCATTAACAGTGAGCCCGCTGCGCGCGCGGCCGGCATCACTGGCC  >  NC_002947/4613737‑4614020

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.