New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5630781 =	49 (0.930)	5 (0.100)	4/244	NT	9.5%	coding (311/3954 nt)	putA	proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase
	?	NC_002947	5630838 =	48 (0.950)					coding (368/3954 nt)	putA	proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase

GTCATGCCAGCAACCCGGCCGACGATGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTCCAGGGCCTG  >  NC_002947/5630634‑5630917                                                                                                                                                     |                                                                                                                                         cgcagcagggcttcggccaggcacatcagcgccacgccttcctgagacgacagcgagaattcctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgtt                                                                                                                                          >  7:14366‑M1/149‑149 (MQ=255)  gcagcagggcttcggccaggcacatcagcgccacgccttcctgagacgacagcgagaattcctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgttg                                                                                                                                         >  5:232297‑M1/148‑149 (MQ=255)  gcagcagggcttcggccaggcacatcagcgccacgccttcctgagacgacagcgagaattcctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgttg                                                                                                                                         <  5:131434‑M1/2‑1 (MQ=255)     gcagggcttcggccaggcacatcagcgccacgccttcctgagacgacagcgagaattcctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgtTGGTg                                                                                                                                      <  1:131962‑M1/5‑1 (MQ=255)             aCCCGGCCGACGATGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGAtgctg                                                                                                                             <  6:338322/149‑1 (MQ=255)                 ggCCGACGATGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGAtgc                                                                                                                               <  8:81136/143‑1 (MQ=255)                 ggCCGACGATGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGAtgc                                                                                                                               >  7:81136/1‑143 (MQ=255)                     gacgaTGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTCCTTCATCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTCCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAg                                                                                                                       >  7:16081/1‑147 (MQ=255)                            ccGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGgcgcgc                                                                                                              <  6:14909/149‑1 (MQ=255)                              ggTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGCTAGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGcc                                                                                                             <  1:233404/149‑1 (MQ=255)                                  aaGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTgg                                                                                                                         >  2:129846/1‑132 (MQ=255)                                  aaGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTgg                                                                                                                         <  1:129846/132‑1 (MQ=255)                                       cAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGcgcc                                                                                                   >  6:113987/1‑149 (MQ=255)                                       cAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGcgcc                                                                                                   >  3:290794/1‑149 (MQ=255)                                       cAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGcgcc                                                                                                   >  2:102146/1‑149 (MQ=255)                                            cGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTgg                                                                                              <  5:113987/149‑1 (MQ=255)                                              aCCACAGCCACCAGTTCTTCCTCGAATTTGCCGAGAGAATCTTGCCGCTGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCGCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCGTGAGCGCGCCGCTGGcc                                                                                            <  8:16081/149‑1 (MQ=255)                                                         caGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaa                                                                                 >  6:130371/1‑149 (MQ=255)                                                              cctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgtTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaacaa                                                                              >  1:309174‑M1/88‑148 (MQ=255)                                                               ctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgtTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaacaa                                                                              <  6:2640‑M1/61‑1 (MQ=255)                                                               ctgcagcaggccctggacgataccggcacggccgccgacgcttttctggttgcgcagtttttcggcaatgcttgcggccagcttgtTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaacaa                                                                              >  5:2640‑M1/87‑147 (MQ=255)                                                                  cTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGgcgcgc                                                                                                              <  7:11767/111‑1 (MQ=255)                                                                   tCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGcc                                                                       >  2:174606/1‑149 (MQ=255)                                                                   tCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGcc                                                                       >  2:174159/1‑149 (MQ=255)                                                                       aTTTGCCGACAGCATCTTGCCGTAGTCGGTACTGCGCTGGTCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGCAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCaa                                                                   <  7:320221/149‑1 (MQ=255)                                                                            ccGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCAtt                                                              <  1:174159/149‑1 (MQ=255)                                                                              gagaGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGc                                                            >  8:145691/1‑149 (MQ=255)                                                                                   cATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGaa                                                        >  7:78336/1‑148 (MQ=255)                                                                                    aTCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTgg                                                                                              >  6:297736/1‑109 (MQ=255)                                                                                    aTCATGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTgg                                                                                              <  5:297736/109‑1 (MQ=255)                                                                                          ccGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGAGGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTgcg                                                >  5:304561/1‑149 (MQ=255)                                                                                          ccGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTgc                                                 <  3:152787/148‑1 (MQ=255)                                                                                              aGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACGAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAAc                                            <  5:130371/149‑1 (MQ=255)                                                                                              aGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAAc                                            <  7:145691/149‑1 (MQ=255)                                                                                                  ggTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAg                                         >  6:127830/1‑148 (MQ=255)                                                                                                   gTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGa                                        >  3:22775/1‑148 (MQ=255)                                                                                                       tGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGaaa                                                       >  6:325945/1‑129 (MQ=255)                                                                                                       tGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGaaa                                                       <  5:325945/129‑1 (MQ=255)                                                                                                          gcTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGt                                 <  5:352338/148‑1 (MQ=255)                                                                                                          gcTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGt                                 >  6:352338/1‑148 (MQ=255)                                                                                                                 gATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGcc                         >  2:347610/1‑149 (MQ=255)                                                                                                                  aTCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCg                        >  8:246082/1‑149 (MQ=255)                                                                                                                     aCCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGc                     <  1:347610/149‑1 (MQ=255)                                                                                                                      ccgccgCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGt                                 >  2:328347/1‑136 (MQ=255)                                                                                                                      ccgccgCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGt                                 <  1:328347/136‑1 (MQ=255)                                                                                                                      ccgccgCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGcc                    >  4:232964/1‑149 (MQ=255)                                                                                                                      agtttttcggcaatgcttgcggccagcttgtTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaac                                                                                >  4:175860‑M1/32‑90 (MQ=255)                                                                                                                      agtttttcggcaatgcttgcggccagcttgtTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACcaac                                                                                <  3:175860‑M1/59‑1 (MQ=255)                                                                                                                           gccTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTAt               <  5:127830/149‑1 (MQ=255)                                                                                                                              tACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCgg                  <  1:171098/143‑1 (MQ=255)                                                                                                                              tACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCgg                  >  2:171098/1‑143 (MQ=255)                                                                                                                                ccgccgCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTc           >  3:315047/1‑148 (MQ=255)                                                                                                                                   ccgccCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCTCCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCATGCCGGTATCGTCCAgg       >  2:169159/1‑149 (MQ=255)                                                                                                                                   ccgccCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTCCAgg       <  8:78336/149‑1 (MQ=255)                                                                                                                                        ccGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTCCAGGGCctg  >  7:43339/1‑149 (MQ=255)                                                                                                                                        ccGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTCCAGGGCctg  <  1:102146/149‑1 (MQ=255)                                                                                                                                            gC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGcc                    <  6:146492/127‑1 (MQ=255)                                                                                                                                            gC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGcc                    >  5:146492/1‑127 (MQ=255)                                                                                                                                                     |                                                                                                                                         GTCATGCCAGCAACCCGGCCGACGATGCCGGTGAAGTCCAGGCCGACCACAGCCACCAGTGCTTCCTCGAATTTGCCGAGAGCATCTTGCCGCAGTCGGTACTGCGCTCGGCGATCACCGCCGCCTACCGCCGCCCCGAGC‑AGGAAGTGGTGCCGATGCTGCTGGAGCAGGCGCGCCTGAGCGCGCCGCTGGCCGACGCCACCAACAAGCTGGCCGCAAGCATTGCCGAAAAACTGCGCAACCAGAAAAGCGTCGGCGGCCGTGCCGGTATCGTCCAGGGCCTG  >  NC_002947/5630634‑5630917

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.