New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1207805	4 (0.120)	20 (0.710)	17/174	0.5	84.4%	coding (305/630 nt)	stfP	e14 prophage, uncharacterized protein
	?	NC_000913	= 1209602	4 (0.140)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage, side tail fiber protein fragment family,Phage or Prophage Related

TTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913/1209471‑1209740                                                                                                                                    |                                                                                                                                           ttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctc                                                                                                                                     <  2:457595‑M2/139‑8 (MQ=255)                                     tcttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAg                                                                                                 >  2:519994/1‑139 (MQ=255)                                                                cATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggat                                                                      <  2:169606‑M2/139‑71 (MQ=255)                                                                   ttCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAggg                                                                   <  2:713434/139‑1 (MQ=255)                                                                     cagccagcCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttg                                                                 >  1:169606‑M2/1‑64 (MQ=255)                                                                        ccagccTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcgg                                                              <  1:309060‑M2/139‑79 (MQ=255)                                                                                                 ggCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                             >  2:807278‑M2/1‑36 (MQ=255)                                                                                                 ggCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatc                                                                                             <  1:807278‑M2/83‑48 (MQ=255)                                                                                                   ccACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgc                                                                >  1:634953‑M2/1‑34 (MQ=255)                                                                                                   ccACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgc                                                                <  2:634953‑M2/110‑77 (MQ=255)                                                                                                      cGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttctcgagatccgtttgca                                                                                                       >  1:562295‑M2/1‑31 (MQ=255)                                                                                                      cGGAACCGGGACACCAACAGGTAATGCAGAGccttctaccaaaccaaggttctcgagagccgtttgca                                                                                                       <  2:562295‑M2/68‑38 (MQ=255)                                                                                                            cGGGACAACAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATCACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACaaa                          >  2:548541/1‑139 (MQ=255)                                                                                                             gggACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggt                         >  1:457595‑M2/1‑24 (MQ=255)                                                                                                             gggACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggt                         >  2:309060‑M2/1‑24 (MQ=255)                                                                                                              ggACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtc                        <  1:586926‑M2/139‑117 (MQ=255)                                                                                                                   ccAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgaga                                                                                                                 <  1:792922‑M2/45‑28 (MQ=255)                                                                                                                   ccAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgaga                                                                                                                 >  2:792922‑M2/1‑18 (MQ=255)                                                                                                                       cAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccgaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccc               <  2:599759‑M2/139‑126 (MQ=255)                                                                                                                       cAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACCTGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAaca               <  1:548541/139‑1 (MQ=255)                                                                                                                              tGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaaatggtcgtgccgccccttctcc        <  1:637280‑M2/139‑133 (MQ=255)                                                                                                                                cAGAGccttctcccaaaccaaggttttcgagagccgtttgca                                                                                                       >  1:199470‑M2/1‑5 (MQ=255)                                                                                                                                cAGAGccttctcccaaaccaaggttttcgagagccgtttgca                                                                                                       <  2:199470‑M2/42‑38 (MQ=255)                                                                                                                                    gccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctg  <  2:22557‑M2/139‑139 (MQ=255)                                                                                                                                    gccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctg  <  1:785750‑M2/139‑139 (MQ=255)                                                                                                                                    |                                                                                                                                           TTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913/1209471‑1209740

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ 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.