New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5545666	NA (NA)	52 (0.860)	45/260	NT	100%	intergenic (‑806/+71)	rpsF/rlmB	30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB
	?	NC_002947	5621244 =	0 (0.000)					coding (20/774 nt)	PP_4939	hypothetical protein

AGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATctc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/5545534‑5545666 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATGGCGGGTGGGGCCTGAGCGCCGG  >  NC_002947/5621244‑5621394                                                                                                                                                                                                                                                                                              AGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGC                                                                                                                                         >  8:105617/1‑149     AAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGAGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCAC                                                                                                                                     >  5:37473/1‑149      AGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACC                                                                                                                                    <  4:372917/149‑1             GGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCC                                                                                                                             >  7:43458/1‑149                GGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTC                                                                                                                          <  7:105617/149‑1                GGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTC                                                                                                                          <  7:36466/149‑1                  CTGACCTACCCGGATCAGTCGGAGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCTTTCTCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTC                                                                                                                          <  5:12777/147‑1                    GACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCA                                                                                                                      >  2:138845/1‑149                       CTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTA                                                                                                                   >  3:334349/1‑149                         ACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTAC                                                                                                                  >  2:313435/1‑148                          CCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGA                                                                                                                <  5:226769/149‑1                                  AGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGC                                                                                                        >  6:309427/1‑149                                    TCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCTCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCT                                                                                                      <  6:37473/149‑1                                      GGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTT                                                                                                     <  4:93196/148‑1                                         GAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAA                                                                                                  >  8:90213/1‑148                                         GAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCAGATTCCCTCCGCATTACGACTATCGGCCTTCAA                                                                                                  >  2:175047/1‑148                                               TTTTCTAGATCACGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGAGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCG                                                                                           >  8:327746/1‑149                                                 TTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCGTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCACCAACCCGCT                                                                                         >  2:330859/1‑149                                                   CTAGATCTCGATGTCAGTGCATATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTC                                                                                        <  3:26725/148‑1                                                      GATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGG                                                                                    >  6:29793/1‑149                                                      GATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGG                                                                                    <  7:184068/149‑1                                                           CGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGT                                                                                <  1:138845/148‑1                                                            GATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGA                                                                              <  4:197273/149‑1                                                            GATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTG                                                                               >  5:289526/1‑148                                                            GATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGC                                                                                  <  5:29793/145‑1                                                                     GCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAA                                                                                                  <  6:65417/120‑1                                                                     GCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAA                                                                                                  >  5:65417/1‑120                                                                      CAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGG                                                                                   <  6:50860/134‑1                                                                      CAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGG                                                                                   >  5:50860/1‑134                                                                        GATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTTATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTT                                                                  <  7:13321/149‑1                                                                             GACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATG                                                             >  3:213235/1‑149                                                                              ACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAG                                                                <  1:313435/145‑1                                                                                GTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCC                                                          <  4:154946/149‑1                                                                                GTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCATGAAAGCTCTTGTTTAGATGCCC                                                          <  5:32890/149‑1                                                                                  CATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGGACCGGATTCCCTCCGCATTACGACTTTCGG                                                                                                         <  1:32397/100‑1                                                                                  CATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACAGGATTACCTCCGCATTAAGACTATCGG                                                                                                         >  2:32397/1‑100                                                                                      CGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTT                                                     >  3:361952/1‑148                                                                                        CATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTT                                                     >  6:236885/1‑146                                                                                        CATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTT                                                     >  3:191244/1‑146                                                                                         ATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGA                                                 <  5:309427/149‑1                                                                                               TTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCA                                             <  7:90213/147‑1                                                                                               TTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCAGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCA                                             <  1:175047/147‑1                                                                                                TTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGC                                           <  7:145520/148‑1                                                                                                    TGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTC                                                                                                    >  8:138541/1‑87                                                                                                         GACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATG                                 <  4:361952/149‑1                                                                                                         GACAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATG                                 <  8:43458/149‑1                                                                                                           CAGCGCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCA                               <  4:334349/149‑1                                                                                                               GCAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGAC                            >  6:373164/1‑148                                                                                                                CAGCCCGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAA                          >  7:13574/1‑149                                                                                                                     CGGAAGGGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTGTTGTTTAGATGCCCAGCTTCAGACGCCGCCGCTGCCCTGCGGCCACTGGCG                     >  8:364917/1‑149                                                                                                                           GGCTGGGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATGGCGGGTGGG               <  6:289526/149‑1                                                                                                                                GGTGATCTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATGGCGGGTGGGGCCTG          <  7:193237/149‑1                                                                                                                                       TCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATG                        >  2:135508/1‑128                                                                                                                                        CTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATGGCGGGTGGGGCCTGAGCGCCGG  >  2:227626/1‑149                                                                                                                                                                                                                                                                                              AGCAAAGTATTCGGCGGCTGACCTACCCGGATCAGTCGGCGAATGCTTTTCTAGATCTCGATGTCAGTGCAGATCTGACGTCATGCGCATCCTGTTTGCTGTGCGACAGCGCAGCCCGGAAGGGCTGGGTGATctc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/5545534‑5545666 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTCTCATTTGAAAAGCGCACCGGATTCCCTCCGCATTACGACTATCGGCCTTCAACAACCCGCTCCTGGGCGTGAAAGCTCTTGTTTAGATGCCCAGCTTCAGACGCAGCCGCTGCCATGCAGACAATGGCGGGTGGGGCCTGAGCGCCGG  >  NC_002947/5621244‑5621394

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.