New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 284691	16 (0.990)	3 (0.190)	3/244	1.9	20.3%	coding (1491/1968 nt)	yagF	CP4‑6 prophage; dehydratase family protein
	?	NC_000913_3_pae_pgi	= 284723	8 (0.510)					coding (1523/1968 nt)	yagF	CP4‑6 prophage; dehydratase family protein

GTTCGGTGATCAAGGCCACGGCGATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGCATGGAAGAGACCTACCAGCTCACCTCCGCGCTAAAGCATATCTCGTGGGGCAAGACGGTGTCGCTCATCACCGATGCGCGCTTCTCGGGCGTGTCGACGGGCGCCTGCTTCGGCCA  >  NC_000913_3_pae_pgi/284543‑284840                                                                                                                                                     |                                                                                                                                                      gTTCGGTGATCAAGGCCACGGCGATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCAtgg                                                                                                                                                      <  2:138957/150‑1 (MQ=255)    cGGTGATCAAGGCCACGGCGATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCAtggtgg                                                                                                                                                   >  2:133246/1‑150 (MQ=255)      gTGATCAAGGCCACGGCGATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGgtggtg                                                                                                                                                 >  3:711/1‑150 (MQ=255)                       gATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGTc                                                                                                                                <  1:133246/150‑1 (MQ=255)                              ccGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGTccggcacc                                                                                                                         <  4:48785/150‑1 (MQ=255)                                 tCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGccggtgccggacggcccgccgccgatcaccacc                                                                                                                      <  2:90671‑M1/150‑34 (MQ=255)                                         gggCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTTGTGATCGGCGGCGGGCCGTCCGGCACCGGCATGGAaga                                                                                                              <  1:63631/150‑1 (MQ=255)                                               aGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGCATGGAAGAGACCTa                                                                                                        <  2:101489/150‑1 (MQ=255)                                                gATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGgtggtg                                                                                                                                                 >  1:150589/1‑108 (MQ=255)                                                gATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGgtggtg                                                                                                                                                 <  2:150589/108‑1 (MQ=255)                                                               cacaCCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGccggtgccggacggcccgccgccgatcaccaccat                                                                                                                    >  3:54884‑M1/1‑87 (MQ=255)                                                               cacaCCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGccggtgccggacggcccgccgccgatcaccaccat                                                                                                                    <  4:54884‑M1/122‑36 (MQ=255)                                                                      gccggGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATggtggt                                                                                                                                                  >  3:107398/1‑85 (MQ=255)                                                                      gccggGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATggtggt                                                                                                                                                  <  4:107398/85‑1 (MQ=255)                                                                               gggtgTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGt                                                                                                                                 <  2:53496/93‑1 (MQ=255)                                                                               gggtgTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGt                                                                                                                                 >  1:53496/1‑93 (MQ=255)                                                                                                             aggcgatcaagCGGGAAGAGATTGTGCAGGGCGATATCATggtggt                                                                                                                                                  <  2:173868/46‑1 (MQ=255)                                                                                                             aggcgatcaagCGGGAAGAGATTGTGCAGGGCGATATCATggtggt                                                                                                                                                  >  1:173868/1‑46 (MQ=255)                                                                                                                                           gCGATATCATGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGCATGGAAGAGACCGACCAGCGCACCTCCGCGCTAAAGCATATCTCGTGGGGCAAGACGGTGTCGCTCATCACCGATGCGCGCTTCTCGGGCGTGTCGACGGGCGCCt            >  4:3766/1‑150 (MQ=255)                                                                                                                                                   aTGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGcatgatatcgccctgcacaatctcttcccgcttgatcgccttgatcgcctgcgcttccgagacaaacacccgcacccggccggtgtg                                >  3:54884‑M2/1‑35 (MQ=255)                                                                                                                                                   aTGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGcatgatatcgccctgcacaatctcttcccgcttgatcgccttgatcgcctgcgcttccgagacaaacacccgcacccggccggtgtg                                <  4:54884‑M2/122‑88 (MQ=255)                                                                                                                                                     ggtggtGATCGGCGGCGGGCCGTCCGGCACCGGcatgatatcgccctgcacaatctcttcccgcttgatcgccttgatcgcctgcgcttccgagacaaacacccgcacccggccggtgtggtggtatacgccatcttcgcccaccaccga  <  2:90671‑M2/150‑118 (MQ=255)                                                                                                                                                     |                                                                                                                                                      GTTCGGTGATCAAGGCCACGGCGATCGACCCGTCGGTGGTGGGCGAAGATGGCGTATACCACCACACCGGCCGGGTGCGGGTGTTTGTCTCGGAAGCGCAGGCGATCAAGGCGATCAAGCGGGAAGAGATTGTGCAGGGCGATATCATGGTGGTGATCGGCGGCGGGCCGTCCGGCACCGGCATGGAAGAGACCTACCAGCTCACCTCCGCGCTAAAGCATATCTCGTGGGGCAAGACGGTGTCGCTCATCACCGATGCGCGCTTCTCGGGCGTGTCGACGGGCGCCTGCTTCGGCCA  >  NC_000913_3_pae_pgi/284543‑284840

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.