New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 574464	12 (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                            <  3:637532/91‑1 (MQ=255)                 aaaaTAAAGGGTAATATATAACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATg                            >  4:637532/1‑91 (MQ=255)                                   taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                <  3:1013517/85‑1 (MQ=255)                                   taACAGAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCaa                >  4:1013517/1‑85 (MQ=255)                                        gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                        >  1:184275/1‑72 (MQ=255)                                        gAAGGTTTATATAGTTAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgg                        <  2:184275/72‑1 (MQ=255)                                                       tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa  <  3:369279/79‑1 (MQ=255)                                                       tAGAAGCAAGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTGGGGAGGCAACGCCTCCCGCAACa  >  4:369279/1‑79 (MQ=255)                                                               aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                      >  3:631169/1‑51 (MQ=255)                                                               aGGTTGTGCTTCTAAAGGAAGTGGCTTGAGGGAGCCACTTATATGTTgggg                      <  4:631169/51‑1 (MQ=255)                                                                             aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc         >  1:783995‑M2/1‑18 (MQ=255)                                                                             aaGGAAGTGGCTTGAGGGagccacttcctttagaagcacaaccttgcttc         <  2:783995‑M2/50‑33 (MQ=255)                                                                                    tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta       <  1:507928‑M2/45‑35 (MQ=255)                                                                                    tGGCTTGAGGGagccacttcctttagaagcacaaccttgcttcta       >  2:507928‑M2/1‑11 (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.