New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1207805	1 (0.020)	11 (0.220)	11/232	NT	96.2%	coding (305/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	= 1209602	0 (0.000)					pseudogene (54/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment

AATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAA  >  NC_000913/1209468‑1209712                                                                                                                                       |                                                                                                               gtgttgtttGTCGGATAAGCCGTTGCCAGTTCCGGGTAGTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAACCCGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTcc                                                                                                        <  2:1001742/137‑1 (MQ=255) catttatttcTCGGATCAGCCTTTGCCAGTGCCTGGTATCCTTCAGCAGACAAAGTCGCCCCATTGCATCTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACCGAACCGGGACACCAACAGGTAATGCAGAGccttctcc                                                                                                        >  2:397343‑M2/2‑135 (MQ=255) aaTTTCTTTGTCGCTTAACCCGTTGCCAGTTCCGGGTAGTCTTCAGCAGAAAAAGCGGCACCATGGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcc                                                                                                        >  2:437450‑M2/1‑135 (MQ=255) aaTTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAGAAAGCGGCACCATGGCATTTCAGCCAGCCTGTCTGCGGAGTGGCTGAAGGCCACGGCACCGGGACACCAACAGGTAATGCAGAGccttctcc                                                                                                        >  2:240468‑M2/1‑135 (MQ=255)        ttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaacca                                                                                                 >  1:534072‑M2/1‑128 (MQ=255)        ttGTCGGATAAGCCTGTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaacca                                                                                                 >  2:413171‑M2/1‑128 (MQ=255)                           cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACCCCAACAGGTAATGCAGAGcctccccccacaccaaggtttccgcgcgccgtct                                                                              <  2:192549‑M2/143‑35 (MQ=255)                              ttCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaacaaaggttttcgagagccgtttgca                                                                           <  1:874444‑M2/143‑38 (MQ=255)                                      aTGCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgcca                                                                   >  1:1060940‑M2/1‑98 (MQ=255)                                          ttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGCTGGCGGAGTCGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAAccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccg                                                               <  1:47981‑M2/143‑50 (MQ=255)                                             agcagAAAAAGCGGCACCAGTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCGACGGCACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatt                                                            >  2:72829‑M2/1‑91 (MQ=255)                                                agAACAAGCGGCACCATTGCATTTCAGCCAGGCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttga                                                         >  2:805028‑M2/1‑88 (MQ=255)                                                                           ccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggctta                              >  1:478366‑M2/1‑61 (MQ=255)                                                                              gccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaagcggattcttgcggcttaaca                           <  1:678655‑M2/143‑86 (MQ=255)                                                                                       cGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgacctgatatcgccaaacggatgctcgcggcctaacagcaccgcgc                  <  2:1117790‑M2/143‑95 (MQ=255)                                                                                                     gCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacggcagcgcgcgaagtgcggtaagt    <  1:82920‑M2/143‑109 (MQ=255)                                                                                                       cACGGAACGGGGACACCGGCGGGTAATGCAGAGccttctcccattccaaggttttcgagagccgtgtgtacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa  >  1:192549‑M2/1‑33 (MQ=255)                                                                                                                                       |                                                                                                               AATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAA  >  NC_000913/1209468‑1209712

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.