New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 2269338 =1 (0.020)55 (1.190) 45/290 0.1 98.2% coding (587/1026 nt) yejE microcin C transporter YejABEF, permease subunit; ABC family
?CP009273 = 3577555 NA (NA)intergenic (+15/‑1) insB1/yrhA IS1 transposase B/pseudogene, interrupted by IS1E

CTGACGCCAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/2269482‑2269338
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGC  <  CP009273/3577555‑3577417
                                                                                                                                                                                                                                                                                            
CTGACGCCAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTA                                                                                                                                         >  1:725402/1‑149
    CGCCACGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGA                                                                                                                                     <  1:299122/149‑1
      CCAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACT                                                                                                                                   >  1:196042/1‑149
       CAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCTGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAA                                                                                                                                        <  2:229875/143‑1
       CAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAA                                                                                                                                        <  2:431348/143‑1
              CTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGCATCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTg                                                                                                                           >  1:480160/1‑148
                GTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATT                                                                                                                         <  1:661001/149‑1
                GTGCCGCACGAATGTAGTCGAAATTACGAGTACGCAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAA                                                                                                                               <  2:476916/143‑1
                GTGCCGCACGAATGTAGTCGAAATGACGAGTACGTAAAGACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAA                                                                                                                               <  2:389993/143‑1
                    CGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATA                                                                                                                     <  1:402529/149‑1
                    CGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATA                                                                                                                     <  1:26017/149‑1
                    CGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATACAGCCAAACAAGACAGTAATGGCCAGCAGCCACCAGAAGTTAGGCTGTACGACCCTGGGGAAATGACTCCAACTTA                                                                                                                           >  2:78516/1‑143
                                GTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTT                                                                                                         <  1:51701/149‑1
                                 cCGAAATTACGATGACGTAAAAACGCCGCCCGCACCCCGCCGACCAGACTCATCCAGCTAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTT                                                                                                              <  2:540357/142‑1
                                 TCGAAATTACGAGTACGTAAAATCTCCGCCCGCACCACGCCGACCAGACTCACCCAGGCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTCGGCGGTACGACGCTGGGGTAATGTCTCCAACTTATTCATAGTGTTTTATGTTC                                                                                                        <  1:500769/149‑1
                                   GAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAG                                                                                                      <  1:505649/149‑1
                                   GAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                                                                                            >  2:37669/1‑143
                                       TTACGAGTACGTAAAAACCCCGCCCGCACCACGCCGACCAGACTCACCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAATTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTC                                                                                                        <  2:4636/143‑1
                                           GAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCC                                                                                              >  1:301693/1‑149
                                               ACGTAAAAGCTCCGCCCGAACCACGCCGACCAGACCCATCCAGGCCAACAAGACAGTAACTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATG                                                                                                <  2:651829/143‑1
                                                   AAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGAGGACT                                                                                      >  1:719740/1‑149
                                                     AAACCCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTT                                                                                    <  1:766175/149‑1
                                                      AACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTTATAGTGTTCTATGTTCAGATAATGCCCGATG                                                                                         >  2:324302/1‑143
                                                      AACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTG                                                                                   <  1:564064/149‑1
                                                         TCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACT                                                                                      >  2:462217/1‑143
                                                             CCCGCAACACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTACTGATAGTGTTTTATGTTCAGATACTGCCCGATGACTTTGT                                                                                  >  2:432873/1‑143
                                                                    CACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAG                                                                           <  2:237030/143‑1
                                                                             CAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGA                                                            <  1:86165/149‑1
                                                                                     TCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACA                                                    <  1:164420/149‑1
                                                                                     TCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTACAACTTATTGATCGTGAATTATGTTCAGATCATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGc                                                          >  2:423847/1‑142
                                                                                            AAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTTCACGGATTTTGAGGACGGCAG                                                   >  2:209792/1‑143
                                                                                              ACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCGACTCCACCGATTTTGAGAACGGCAGCGGCTTCC                                           >  1:414554/1‑149
                                                                                              ACAAGACAGTAATTGCCAGCAGCCACCAAAAGGTAGGCTGGACGACGCTGCGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCC                                           <  1:106722/149‑1
                                                                                                AAGACCGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGAC                                               <  2:265635/143‑1
                                                                                                      GTAACTACCAACAGCCACCAGAAGTTAGGCTGTACGACGCCGGCGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGC                                   <  1:299256/149‑1
                                                                                                       TAACTGCCAGCAGCCACCAGAAGTGAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGTCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGCCAGCGACTTCCGTC                                        <  2:210571/143‑1
                                                                                                        AATTGGCAGCAGCCACCAGGAGTTAGGCTGTACGACGCTGGGGTAATGTCTCCAACTTATTGATTGTGTTTTATGTTCAGTTCATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCC                                       <  2:340033/143‑1
                                                                                                         atgGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGAGAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACACCGACTTCCGTCCC                                      <  2:430078/140‑1
                                                                                                         ATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCC                                      >  2:601888/1‑143
                                                                                                           TGCTAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTGATTGATAGTGTTTTATGTGCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAG                                    <  2:682935/143‑1
                                                                                                            GCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGC                                   <  2:197175/143‑1
                                                                                                              CAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGCCTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCCCCACCGATTTTGAGAAAGACAGCCACTTCCGTCCAACCCG                                 >  2:209884/1‑143
                                                                                                                GCAGCCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGT                         <  1:312313/149‑1
                                                                                                                    CCACCAGAAGTTAGGCTTCACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAG                           <  2:554829/143‑1
                                                                                                                    CCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTG                     >  1:322741/1‑149
                                                                                                                    CCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCACCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTG                     >  1:567706/1‑149
                                                                                                                    CCACCAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTCATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAAAGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTG                     >  1:536622/1‑149
                                                                                                                        CAGAAGTTAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGACGACTTTGTCATGCAGCTCCACCGATTTTGCGAACGTCAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTC                 <  1:190112/149‑1
                                                                                                                               TAGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTAAAAAAATGCGCGTTGACTTTGTCATGCAGCTCCACCGATTTTGAGAATGACTACTTCGTCCGTCCCAGCCGTGCCAGGTGGTACCCCAGATTCA          >  1:461349/1‑149
                                                                                                                                AGGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAG         <  1:447790/149‑1
                                                                                                                                AGGCCGTACGCCGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAG         <  1:64870/149‑1
                                                                                                                                 GGCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGG        <  1:520208/149‑1
                                                                                                                                  GCTGTACGACGCTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACCGCGAGTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGAT             >  2:334858/1‑143
                                                                                                                                      TACGACGCTGGGGTAACGACTCCATCTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAG         <  2:205125/143‑1
                                                                                                                                             CTGGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGC  >  2:224913/1‑143
                                                                                                                                                                                                                                                                                            
CTGACGCCAAGCGCCTGTGCCGCACGAATGTAGTCGAAATTACGAGTACGTAAAAACTCCGCCCGCACCACGCCGACCAGACTCATCCAGCCAAACAAGACAGTAATTGCCAGCAGCCACCAGAAGTTAGGCTGTACGACGCTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/2269482‑2269338
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGC  <  CP009273/3577555‑3577417

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.