New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? BS168_reference_genome = 215204661 (0.960)8 (0.150) 8/200 NT 13.7% intergenic (+1/+40) spsMn/sprB spore capsular polysaccharide biosynthesis enzyme fragment; N‑terminal part of SpsM/recombination directionality factor; phage SPbeta
?BS168_reference_genome 2286449 = 48 (0.870)pseudogene (2/606 nt) spsMc sporulation capsular polysaccharide biosynthesis enzyme C‑terminal end; restored upon phage SPbeta excision

TCACGCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  BS168_reference_genome/2151895‑2152046
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑acagataaagctgtatCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCAGAGGTTCGGT  >  BS168_reference_genome/2286449‑2286584
                                                                                                                                                                                                                                                                                                
TCACGCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTAC                                                                                                                                                        <  6:239863/138‑1
  ACGCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGA                                                                                                                                                     <  6:276454/139‑1
    GCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATA                                                                                                                                                   <  4:220951/139‑1
    GCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATA                                                                                                                                                   <  4:139206/139‑1
    GCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATA                                                                                                                                                   <  3:40985/139‑1
      GGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAA                                                                                                                                                 <  1:308211/139‑1
      GGCTGCGCTGAAACAGGTTCCGACATGTGAGGACAATCCATTTGAAGCGATCCAGACAAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCTAGTGCAGCATGTCATTAATATCAGTAAAGATA                                                                                                                                                   >  7:237320/1‑137
       GCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAG                                                                                                                                                <  4:71967/139‑1
        CTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGC                                                                                                                                               <  7:186350/139‑1
           CGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCT                                                                                                                                              <  3:307472/137‑1
            GCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTA                                                                                                                                           <  3:123964/139‑1
                                GTGAGGCCCATCCATTTGAAGCGATCCAGACCTGTCTCTTCGGCGGACAAAATGTGGTGGAAGCTGCCGTTTCTCACCGAGTGCTGCATGTCTTTTATATCAGTACAGATAAAGCTGTATCTCCTGTGATCAGATTGGG                                                                                                                       >  4:339164/1‑139
                                          TCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGA                                                                                                                                                     >  5:122746/1‑99
                                          TCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGA                                                                                                                                                     <  6:122746/99‑1
                                                        TCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAA                                                                                                 >  5:148539/1‑137
                                                                  TCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGCGTGCAGCATGTCATTAATATCAGTAAAGATAAAGCTGTATCTCCTGTGACCACAATGGGTGCCACCAAGGAGTTATCTGAAAAGCTGATTCA                                                                                      >  6:44329/1‑138
                                                                      ATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAG                                                                                 >  4:219930/1‑139
                                                                                                   CCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACC                                                    <  6:148539/139‑1
                                                                                                                           CATTAATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGG                             >  6:326902/1‑138
                                                                                                                            ATTAATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAA                           <  5:326902/139‑1
                                                                                                                                ATATCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGT                       >  8:179106/1‑139
                                                                                                                                   TCAGTACAGATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCT                    <  7:179106/139‑1
                                                                                                                                           GATAAAGCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCA            <  5:310819/139‑1
                                                                                                                                            ATAAAGATGTATCTCCTGTGACCACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCAG           <  1:274794/139‑1
                                                                                                                                                 GCTGTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCAGAGGTT      >  1:364108/1‑139
                                                                                                                                                    GTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCT                    >  2:175061/1‑122
                                                                                                                                                    GTATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCT                    <  1:175061/122‑1
                                                                                                                                                     TATCTCCTGTGAACACAATGGGTGCCACCAATCTGTAATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGATCTCGGATCCAGAGGTTCGGT  <  3:303926/139‑1
                                                                                                                                                     TATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCAGAGGTTCGGT  <  3:219930/139‑1
                                                                                                                                                     TATCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTATTCGGTCCGCTTTTGAAATGTTCTCGGTTCCAGAGctgtct   >  2:285813/1‑132
                                                                                                                                                                                                                                                                                                
TCACGCGGCTGCGCTGAAACAGGTTCCGACATGTGAGGACCATCCATTTGAAGCGATCCAGACCAATCTCATCGGCGGACAAAATGTGGTGGAAGCTGCCCTTTCACACCGAGTGCAGCATGTCATTAATATCAGTACAGATAAAGCTGTAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  BS168_reference_genome/2151895‑2152046
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑acagataaagctgtatCTCCTGTGAACACAATGGGTGCCACCAAGCTGTTATCTGAAAAGCTGTTTCATCAAGCAAACCGCCACGTCCAAAACAAAGGAACCTTGTTTTGTTCGGTCCGCTTTGGAAATGTTCTCGGTTCCAGAGGTTCGGT  >  BS168_reference_genome/2286449‑2286584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.