New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	288405 =	82 (0.860)	5 (0.060)	3/256	NT	6.0%	coding (758/759 nt)	xynR	CP4‑6 prophage; DNA‑binding transcriptional repressor XynR
	?	NC_000913	288449 =	79 (0.890)					coding (714/759 nt)	xynR	CP4‑6 prophage; DNA‑binding transcriptional repressor XynR

GTGGCGGTGCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/288562‑288405 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cccggcctgCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGCTGTCCA  >  NC_000913/288449‑288597                                                                                                                                                                                                                                                                                                                     GTGGCGGTGCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTAC                                                                                                                                                               >  1:1599750/1‑150       GTGCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCC                                                                                                                                                         <  1:1419178/150‑1        TGCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCT                                                                                                                                                        >  1:171645/1‑150         GCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTG                                                                                                                                                       <  1:1604532/150‑1                                                                                                            GCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCA                                                    >  1:873076/1‑150                                                                                                                 AGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCCCGCGGGAGGTCAGCGTCGCCAGGCTCAGGGCGGCGATGACGCGGGCCTCGTGGTTCCACACCG                                               >  1:1106553/1‑150                                                                                                                 AGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGCCTCGTGGTTCCACACCG                                               >  1:1100927/1‑150                                                                                                                  GCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGG                                              >  1:1177807/1‑150                                                                                                                      GCCGGGCTCGCGCTCTCGCGCGCGCTGGG‑‑‑‑‑‑‑‑‑CTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAG                                 >  1:769322/1‑150                                                                                                                                                      CCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTC          <  2:1602333/150‑1                                                                                                                                                      CCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTC          <  2:1349996/150‑1                                                                                                                                                      CCCGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTC          <  1:488516/150‑1                                                                                                                                                        CGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGC        <  2:906282/150‑1                                                                                                                                                        CGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGC        <  1:311797/150‑1                                                                                                                                                        CGGCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGC        <  1:1352475/150‑1                                                                                                                                                          GCCTGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGTGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGCTG      <  2:1256550/150‑1                                                                                                                                                             TGCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGCTGTCC   >  1:547045/1‑150                                                                                                                                                              GCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGCTGTCCA  <  1:1644251/150‑1                                                                                                                                                                                                                                                                                                                     GTGGCGGTGCCGGTGTGGAACCACGAGTCCCGCGTCATCGCCGCCCTGAGCCTGTCGACGCTGACCTCCCGCGTGGACGACGCGGAGCTGGCTAATTTCCGCGAGCAGCTTCAGCAGGCCGGGCTCGCGCTCTCGCGCGCGCTGGGCTACCCGGCCTG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/288562‑288405 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cccggcctgCTGAAGCTGCTCGCGGAAATTAGCCAGCTCCGCGTCGTCCACGCGGGAGGTCAGCGTCGACAGGCTCAGGGCGGCGATGACGCGGGACTCGTGGTTCCACACCGGCACCGCCACGCAGCGCACGCCCTGCTCGTTCTCTTCGCTGTCCA  >  NC_000913/288449‑288597

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