New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 286650	113 (0.740)	6 (0.040)	6/510	NT	5.2%	coding (1256/1383 nt)	yagG	CP4‑6 prophage; putative sugar transporter
	?	NC_000913	= 286682	109 (0.740)					coding (1288/1383 nt)	yagG	CP4‑6 prophage; putative sugar transporter

ATCGCGCTCATTTTTGCCCTCAACATCCTGTTCCTGTTCGTCTTTAATACCACCACGCCGCTGCAGTGGCTGATGGCTTCTGACGTGGTGGACTACGAGGAGAGCCGCAGCGGTCGCCGCCTCGACGGGCTGGTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/286343‑286650 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑acgcgggcatCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGATCCAGCCCACCACCGCCCCGCCAATCGCCAGGCCAATCTTCAGGCTGAACAGGTAGGTGGAGAACACCAGCCCGTCGAGGCGGCGACCGCTGCGGCTCTCCTCGTAGTCCACCACGTCAGAAGCCATCAGCCACTGCAGCGGCGTGGTGGTATT  <  NC_000913/286682‑286388                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ATCGCGCTCATTTTTGCCCTCAACATCCTGTTCCGGGTCGTCTTTAATACCACCCCGCCTCTGCAGTGGCTGATGGCTTCTGACGTGGTGGACTACGAGGAGAGCCGCAGCGGTCGCCGCCTCGACGGGCTGGTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACG                                                                                                                                                                                                                                                                                                                <  2:907409/301‑1                                                        CGCCGCTGCAGTGGCTGATGGCTTCTGACGTGGTGGACTACGAGGAGAGCCGCAGCGGTCGCCGCCTCGACGGGCTGGTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCA                                                                                                                                                                                                                                                                                                          >  2:230193/1‑252                                                                                                                                GGCTGTTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGC                                                                                                                                                                                                                                                          <  1:928573/228‑1                                                                                                                                GGCTGGTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGC                                                                                                                                                                                                                                                          >  2:928586/1‑228                                                                                                                                                                                                                                                                       TCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTACAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACTCTGATACGGGCGGAATAGTTGACGTACGCCAGGATCCAGCCAACCAACGCCCCGCAAATCGCCAGGCCAATCTTCAGGATGAAAAGGTAACTGGAGCACACCAGCCCGCCAGAGCCGCCACCGCTCAGGCCCCCCTCGGAGTGCACa                                           >  2:1547100/1‑299                                                                                                                                                                                                                                                                                          GGTGCCGGTGGTGGTCCACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGCCCCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGATCC                                                                                                                                                         <  2:944030/171‑1                                                                                                                                                                                                                                                                                          GGTGCCGGTGGTGCTCCACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCCCGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGATCC                                                                                                                                                         >  1:944017/1‑171                                                                                                                                                                                                                                                                                           GTGCCGGTGGTGCTCTACGGGGGCATCCGTGAGCTTGTAGAGCCACAGCATGATGAACATGCCCGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGATCCAGCCCACCACCGCCC                                                                                                                                          <  2:1280202/185‑1                                                                                                                                                                                                                                                                                                         CTACGCGGGCATCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGCTACAGCCCACCACCGCGCCGCAAATCGCCCGGCCAATCTTCAGGCTGAACAGGTAGGTGGAGAACACCAGCCCGTCGAGGCGGCGACCGCTGAGCACCTCACCGTAGTCACCCACGCCCGAAGCCATCAGCCCACGCAGCGGCATGGg        >  1:1279126/1‑300                                                                                                                                                                                                                                                                                                               GGGCATCGGTTAGCTTGTCGAGCGACAGCATGATGAACATGCCAGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCACAACCGGCTGCACGCTGCTGCTGGAGGACTAGTTGGCGTACGCCAGGAACCAGCCCACCACCGACCCGCCAATCGCCAGGCCAATCATCAGGCCGAACAGGTCGGTGAAGCACACCAGCCCGGCGAGGCGGCGACCGCTGCGGCCATCCTCACACGCCAGCACGTCATAACCCATCCGCCGCTGCAGCGGCGCGGGGGTcga  >  1:1196055/1‑298                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             ATCGCGCTCATTTTTGCCCTCAACATCCTGTTCCTGTTCGTCTTTAATACCACCACGCCGCTGCAGTGGCTGATGGCTTCTGACGTGGTGGACTACGAGGAGAGCCGCAGCGGTCGCCGCCTCGACGGGCTGGTGTTCTCCACCTACCTGTTCAGCCTGAAGATTGGCCTGGCGATTGGCGGGGCGGTGGTGGGCTGGATCCTGGCGTACGTCAACTATTCCGCCAGCAGCAGCGTGCAGCCGGTTGAGGTGCTCACCACCATCAAAATTCTGTTCTGCGTGGTGCCGGTGGTGCTCTACGCGGGCAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/286343‑286650 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑acgcgggcatCGGTGAGCTTGTAGAGCGACAGCATGATGAACATGCCCGCGTAGAGCACCACCGGCACCACGCAGAACAGAATTTTGATGGTGGTGAGCACCTCAACCGGCTGCACGCTGCTGCTGGCGGAATAGTTGACGTACGCCAGGATCCAGCCCACCACCGCCCCGCCAATCGCCAGGCCAATCTTCAGGCTGAACAGGTAGGTGGAGAACACCAGCCCGTCGAGGCGGCGACCGCTGCGGCTCTCCTCGTAGTCCACCACGTCAGAAGCCATCAGCCACTGCAGCGGCGTGGTGGTATT  <  NC_000913/286682‑286388

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ 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.