New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 201181	47 (1.110)	4 (0.100)	4/244	NT	8.0%	coding (6687/26049 nt)	PP_0168	putative surface adhesion protein
	?	NC_002947	= 201207	48 (1.200)					coding (6713/26049 nt)	PP_0168	putative surface adhesion protein

ACAAAGATGGTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAGGTCACCATCACG  >  NC_002947/201036‑201328                                                                                                                                                   |                                                                                                                                                    acaaAGATGGTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCggtg                                                                                                                                                  >  4:72967/1‑149 (MQ=255)   aaaGATGGTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCggtggt                                                                                                                                                >  8:198864/1‑149 (MQ=255)        tGGTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATg                                                                                                                                           <  6:257173/149‑1 (MQ=255)          gTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGcc                                                                                                                                         <  2:206539/149‑1 (MQ=255)               ccGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATc                                                                                                                                      <  7:64859/147‑1 (MQ=255)                           cACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGTACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGcgg                                                                                                                        <  4:137096‑M2/149‑4 (MQ=255)                              tCGGAGCTGTACTTCAAGCTGACCGACGGAACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGcggcgc                                                                                                                     >  8:211734‑M2/1‑143 (MQ=255)                                ggAGCTGTACTTCAAGCTGACCGACGGCACCACC‑GTCGTCGTGGCAGCCAACAGCACCACCGGTTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACCAACGCGCCGctgaccgcgtcgatggcattgaccaccggcgc                                                                                                                     <  6:166621‑M1/147‑33 (MQ=255)                                     tGTACTTCAAGCTGACCGACGGCACCACTGGTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGc                                                                                                               >  1:24531/1‑149 (MQ=255)                                       tACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGt                                                                                                             <  6:249503/148‑1 (MQ=255)                                          ttCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAAt                                                                                                                                            <  8:216469/114‑1 (MQ=255)                                          ttCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTgg                                                                                                           >  8:2837/1‑147 (MQ=255)                                           tCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGAAGCCGTCAGCGGCGCAGATGCGTGGAAg                                                                                                        >  3:22896/1‑149 (MQ=255)                                                 tGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGctgacggcgtcgatggcattgaccaccggcgcattagt                                                                                                               <  1:102960‑M1/136‑39 (MQ=255)                                                 tGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGctgacggcgtcgatggcattgaccaccggcgcattagt                                                                                                               >  2:102960‑M1/1‑98 (MQ=255)                                                    ccGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGTTGGTCAATGCCATCGACGCCTTCAGCGGCGCAGATGCGTGGAAGTTCGAAaac                                                                                               <  4:140874/149‑1 (MQ=255)                                                             ccacT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAaacctgaacctg                                                                                      <  5:200464/149‑1 (MQ=255)                                                              cacT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAaacctgaacctg                                                                                      >  1:104936/1‑148 (MQ=255)                                                                         gtGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACATGAACCTGGACAAGAcccc                                                                           >  2:183825/1‑149 (MQ=255)                                                                          tGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGAt                                                                                                                 >  8:61031/1‑110 (MQ=255)                                                                          tGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGAt                                                                                                                 <  7:61031/110‑1 (MQ=255)                                                                          tGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCg                                                                          <  1:183825/149‑1 (MQ=255)                                                                               gCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAg                                                                     <  4:212755/149‑1 (MQ=255)                                                                               gCCAACAGCACCACCGGTTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACCAACGCGCCGctgaccgcgtcgatggcattgaccaccggcgcgtt                                                                                                                  >  4:24464‑M1/1‑69 (MQ=255)                                                                                      gCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTAcc                                                              <  2:24531/149‑1 (MQ=255)                                                                                       caccacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGc                                                                                                               >  6:164989/1‑99 (MQ=255)                                                                                       caccacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGc                                                                                                               <  5:164989/99‑1 (MQ=255)                                                                                         ccacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGt                                                            >  2:31550/1‑148 (MQ=255)                                                                                         ccacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTc                                                           >  2:35589/1‑149 (MQ=255)                                                                                          cacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCa                                                          <  2:104936/149‑1 (MQ=255)                                                                                          cacGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCa                                                          >  3:65271/1‑149 (MQ=255)                                                                                           acGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCAc                                                         <  3:72967/149‑1 (MQ=255)                                                                                            cGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACt                                                        <  1:141949/149‑1 (MQ=255)                                                                                                 tCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGAc                                                     >  3:76908/1‑147 (MQ=255)                                                                                                 tCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGAc                                                     >  8:129007/1‑147 (MQ=255)                                                                                                   ggCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGc                                                 >  6:166929/1‑149 (MQ=255)                                                                                                     ccACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCa                                               <  7:2837/149‑1 (MQ=255)                                                                                                       aCTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGCTGCGTGGAAGTTCGAAAACCTGACCATGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAgg                                             >  3:146103/1‑149 (MQ=255)                                                                                                                gCACCATACAACGTCTATGTCGGCACTATTGCGCCGGTTGTCAATGCCATCGAGGCCGTCAGCGGCGCTGATGCGTGGAAGTGCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAgg                                    <  4:146103/149‑1 (MQ=14)                                                                                                                gCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGAccc                                                                            <  5:163121/109‑1 (MQ=40)                                                                                                                gCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGAccc                                                                            >  6:163121/1‑109 (MQ=40)                                                                                                                 cACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAgg                                    >  3:205180/1‑148 (MQ=40)                                                                                                                 cACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGc                                   <  4:22896/149‑1 (MQ=40)                                                                                                                   ccAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCaa                                 <  4:65271/149‑1 (MQ=39)                                                                                                                     aGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCg                                                                          <  5:179811/106‑1 (MQ=40)                                                                                                                     aGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCg                                                                          >  6:179811/1‑106 (MQ=40)                                                                                                                      gACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACg                               >  7:108032/1‑148 (MQ=37)                                                                                                                            gTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGa                        <  7:129007/149‑1 (MQ=37)                                                                                                                                aTGTCGGCACTAATGCGCCCGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGAGGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATc                    >  4:10170/1‑149 (MQ=255)                                                                                                                                   tCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGt                  >  7:23314/1‑148 (MQ=37)                                                                                                                                     ggCACTAATGCGCCGGTGGTCACTGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTc                 >  7:39657/1‑147 (MQ=37)                                                                                                                                      gCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAg              >  5:264949/1‑149 (MQ=37)                                                                                                                                        aCTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGcggcgcattagtgccgacatagacgttgtctggtgcggttgcagtggccgagcccgtggtgctgttggctgccacgacgacagtggtgccgtcggtca                         <  1:102960‑M2/136‑99 (MQ=255)                                                                                                                                        aCTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGcggcgcattagtgccgacatagacgttgtctggtgcggttgcagtggccgagcccgtggtgctgttggctgccacgacgacagtggtgccgtcggtca                         >  2:102960‑M2/1‑38 (MQ=255)                                                                                                                                        aCTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAGGt            <  6:264949/149‑1 (MQ=37)                                                                                                                                          tAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAgg                                             >  3:179928/1‑114 (MQ=37)                                                                                                                                           aaCGCGCCGGTGGTCAATGCCATCGACGCGGTCAGcggcgcgttggtgccgacatagacgttgtctggtgcggttgcagtggccgaaccggtggtgctgttggc                                                      >  4:24464‑M2/1‑35 (MQ=255)                                                                                                                                            aTGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAGGTCAc         >  3:240552/1‑148 (MQ=33)                                                                                                                                              gcgcCGctgacggcgtcgatggcattgaccaccggcgcattagtgccgacatagacgttgtctggtgcggttgcagtggccgagcccgtggtgctgttggctgccacgacgacagtggttccgtcggtcagcttgaagtacagctccga      >  8:211734‑M1/1‑6 (MQ=255)                                                                                                                                              gcgcCGGTGGTCAATGCCATCGACGCGGTCAGcggcgcgttggtgccgacatagacgttgtctggtgcggttgcagtggccgaaccggtggtgctgttggctgccacgacgacggtggtgccgtcggtcagcttgaagtacagctcc        <  6:166621‑M2/147‑116 (MQ=255)                                                                                                                                                 ccgctgacggcgtcgatggcattgaccaccggcgcattagtaccgacatagacgttgtctggtgcggttgcagtggccgagcccgtggtgctgttggctgccacgacgacagtggtgccgtcggtcagcttgaagtacagctccgagtg   <  4:137096‑M1/149‑147 (MQ=255)                                                                                                                                                  cGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAGGTCACCATCACg  >  3:264196/1‑149 (MQ=32)                                                                                                                                                   |                                                                                                                                                    ACAAAGATGGTCTGCCGATCAACAACCACTCGGAGCTGTACTTCAAGCTGACCGACGGCACCACT‑GTCGTCGTGGCAGCCAACAGCACCACGGGCTCGGCCACTGCAACCGCACCAGACAACGTCTATGTCGGCACTAATGCGCCGGTGGTCAATGCCATCGACGCCGTCAGCGGCGCAGATGCGTGGAAGTTCGAAAACCTGAACCTGGACAAGACCCCGGTCAGCACTACCGTCACTGACGAGCCAGGCACTCCAGGCAACGAAGGCGACATCGTCAAGGTCACCATCACG  >  NC_002947/201036‑201328

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.