New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 57446412 (0.130)4 (0.050) 4/184 NT 29.6% intergenic (+125/+65) quuD/nmpC DLP12 prophage; putative antitermination protein/DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage
?NC_000913 = 574470 8 (0.090)intergenic (+131/+59) quuD/nmpC DLP12 prophage; putative antitermination protein/DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage

CGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACA  >  NC_000913/574377‑574509
                                                                                       |                                             
cGTTGAGACTCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGCTGTGCTTCTAAAGGAAGTGGCTTGAggg                                         >  4:990135/1‑94 (MQ=255)
cGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAggg                                         <  3:990135/94‑1 (MQ=255)
                aaaaTAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATg                            >  4:637532/1‑91 (MQ=255)
                aaaaTAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATg                            <  3:637532/91‑1 (MQ=255)
                            aaTATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTg                                             <  2:1087203/62‑1 (MQ=255)
                            aaTATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTg                                             >  1:1087203/1‑62 (MQ=255)
                                  taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                <  3:1013517/85‑1 (MQ=255)
                                  taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                >  4:1013517/1‑85 (MQ=255)
                                       gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAgg                                          >  3:840040/1‑54 (MQ=255)
                                       gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAgg                                          <  4:840040/54‑1 (MQ=255)
                                       gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                        <  2:184275/72‑1 (MQ=255)
                                       gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                        >  1:184275/1‑72 (MQ=255)
                                                      tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagcca                                    >  2:507928‑M1/1‑34 (MQ=255)
                                                      tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagcca                                    <  1:507928‑M1/45‑12 (MQ=255)
                                                      tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa  <  3:369279/79‑1 (MQ=255)
                                                      tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa  >  4:369279/1‑79 (MQ=255)
                                                        gAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagccacttcctt                             <  2:783995‑M1/50‑19 (MQ=255)
                                                        gAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTccctcaagccacttcctt                             >  1:783995‑M1/1‑32 (MQ=255)
                                                              aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                      >  3:631169/1‑51 (MQ=255)
                                                              aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                      <  4:631169/51‑1 (MQ=255)
                                                                            aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc         <  2:783995‑M2/50‑33 (MQ=255)
                                                                            aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc         >  1:783995‑M2/1‑18 (MQ=255)
                                                                                   tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta       >  2:507928‑M2/1‑11 (MQ=255)
                                                                                   tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta       <  1:507928‑M2/45‑35 (MQ=255)
                                                                                       |                                             
CGTTGAGACGCCCCCAAAAATAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACA  >  NC_000913/574377‑574509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.