New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947 = 601932670 (0.750)5 (0.070) 3/204 NT 7.2% intergenic (‑71/+74) dadX/dadA‑II alanine racemase/D‑amino acid:quinone oxidoreductase
?NC_002947 = 6019356 72 (0.950)intergenic (‑101/+44) dadX/dadA‑II alanine racemase/D‑amino acid:quinone oxidoreductase

CCTTGATCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/6019156‑6019326
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgggcttgcccgctcccacaggAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCCA  <  NC_002947/6019356‑6019212
                                                                                                                                                                                                                                                                                                                            
CCTTGATCACGGCGAGGGCTTTGGCACGCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGC                                                                                                                                                                        >  1:1776851/1‑150
CCTTGATCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGC                                                                                                                                                                        >  1:379052/1‑150
 CTTGATCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCG                                                                                                                                                                       >  2:1738618/1‑150
    GATCACGGCGAGGGCTTTGGCACACGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGC                                                                                                                                                                    <  1:1738618/150‑1
      TCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGAATCCGTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTT                                                                                                                                                                  >  1:1730248/1‑150
      TCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTGGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGGGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTT                                                                                                                                                                  >  1:1761075/1‑150
           GCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCG                                                                                                                                                             <  1:1838707/150‑1
            CGAGGGCTTGGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGC                                                                                                                                                            <  2:732762/150‑1
             GAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCT                                                                                                                                                           <  1:1087412/150‑1
             GAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCT                                                                                                                                                           >  1:2280801/1‑150
              AGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTC                                                                                                                                                          >  2:437325/1‑150
                 GCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTT                                                                                                                                                                  >  1:1504301/1‑139
                 GCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTT                                                                                                                                                                  <  2:1504301/139‑1
                 GCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCAAGCCCGCga                                                                                                                                                          <  2:2105047/147‑3
                 GCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCAAGCCCGCga                                                                                                                                                          >  1:2105047/1‑145
                 GCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCCGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCA                                                                                                                                                       >  2:195380/1‑150
                              TCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGTGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACA                                                                                                                                                     <  2:1221792/139‑1
                              TCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGTGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACA                                                                                                                                                     >  1:1221792/1‑139
                                                          GCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCC                                                                                                                                                               <  2:1357482/101‑1
                                                          GCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTGAGGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCC                                                                                                                                                               >  1:1357482/1‑101
                                                                GGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGG                                                                                                        <  2:379052/150‑1
                                                                GGCCTGGAAGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGG                                                                                                        <  2:140570/150‑1
                                                                    TGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAA                                                                                                    <  1:2330259/150‑1
                                                                                  GGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGC                                                                                                                                                                <  1:2302172/76‑1
                                                                                  GGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGC                                                                                                                                                                >  2:2302172/1‑76
                                                                                       GGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGG                                                                                                        <  1:331533/127‑1
                                                                                       GGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGG                                                                                                        >  2:331533/1‑127
                                                                                                                                                     CGGGCATGCCCGCTCCCACAGCAACACCACCGCTTTTGCAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCCTAAGCCAGCCGCTATCCGCCCCACCCGCGCCCTGATCGAC                   >  2:725915/1‑150
                                                                                                                                                      GGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTA                                             >  1:639664/1‑123
                                                                                                                                                      GGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTA                                             <  2:639664/123‑1
                                                                                                                                                      GGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGC                                               <  2:1170229/121‑1
                                                                                                                                                      GGGCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGC                                               >  1:1170229/1‑121
                                                                                                                                                        GCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTC                >  1:1568925/1‑150
                                                                                                                                                        GCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGG                                                      <  2:2164509/112‑1
                                                                                                                                                        GCTTGCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGG                                                      >  1:2164509/1‑112
                                                                                                                                                          TTGCCCGCTCCCACAGTAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCTCCCTGATCTACCTCCA              >  2:1224054/1‑150
                                                                                                                                                          TTGCCCGCTCCCACAGGAACCCCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCA              >  2:1208967/1‑150
                                                                                                                                                            GCCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGG            <  2:1875001/150‑1
                                                                                                                                                             CCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCA                                                    <  1:1772327/109‑1
                                                                                                                                                             CCCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCA                                                    >  2:1772327/1‑109
                                                                                                                                                              CCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGACCGACCTCCAGGCC          >  2:548703/1‑150
                                                                                                                                                              CCGCTCCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAACCGCCCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCC          >  1:1983876/1‑150
                                                                                                                                                                  TCCCACAGGAACACCACCGCTTTTGAAAGCTGTGTACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGC      >  1:2423982/1‑150
                                                                                                                                                                   CCCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCG     <  2:617939/150‑1
                                                                                                                                                                    CCACAGGAACACCACCGCTTTTGACAGCGGAGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGC    >  1:437325/1‑150
                                                                                                                                                                    CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGC    >  2:394363/1‑150
                                                                                                                                                                    CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGC    <  2:1438395/150‑1
                                                                                                                                                                    CCACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGC    >  1:1438395/1‑150
                                                                                                                                                                     CACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCC   >  2:1776851/1‑150
                                                                                                                                                                      ACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCCA  >  1:395788/1‑150
                                                                                                                                                                      ACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCCA  >  1:1735706/1‑150
                                                                                                                                                                      ACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCCA  >  1:1707518/1‑150
                                                                                                                                                                      ACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAAC                                                                >  2:1088629/1‑88
                                                                                                                                                                      ACAGGAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAAC                                                                <  1:1088629/88‑1
                                                                                                                                                                                                                                                                                                                            
CCTTGATCACGGCGAGGGCTTTGGCACCCGTCAGTTCACGGGCCAGACGGTAGTTGTGGCGCAGGGCCTGGAGGTCGATCAGGGCGCGGGCGGGACGCATAGCGGCTGCCTTATGGTGGTTCGGGTTGAAATCGGTGGTGGATTATTCGCGGGCTTGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/6019156‑6019326
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgggcttgcccgctcccacaggAACACCACCGCTTTTGAAAGCTGTGCACGACCTGTGGGAGCGGGCAAGCCCGCGAATAATCCACCACCGATTTCAACCCGAACCACCATAAGGCAGCCGCTATGCGTCCCGCCCGCGCCCTGATCGACCTCCAGGCCCTGCGCCA  <  NC_002947/6019356‑6019212

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.