New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1207805	6 (0.170)	26 (0.840)	24/252	0.4	86.2%	coding (305/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913_3_pae_tpiA	= 1209602	3 (0.100)					pseudogene (18/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related

TCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913_3_pae_tpiA/1209462‑1209740                                                                                                                                             |                                                                                                                                           tCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGGGGCTGAAGGCCACGGAACCGGGACACCAGCAGGTCATGCGGAGccttctcc                                                                                                                                    <  2:555303‑M2/149‑9 (MQ=255)         ttaatttGACGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCaa                                                                                                                            <  2:251619/146‑1 (MQ=255)          ttatttGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaag                                                                                                                           >  1:109502‑M2/1‑132 (MQ=255)                          ccTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAGAGCGGCACCATTGCATGTCAGCCAGCCTGTTGCCGGCGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTGATGCAGAGccttctcccaaaccaagggtttcgagaggcggt                                                                                                           <  1:66344‑M2/149‑34 (MQ=255)                          ccTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATgaag                                                                                                           <  1:319791/149‑1 (MQ=255)                           cTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTCATGCCGAGccttctcccaaaccaaggttttcgagagccgttt                                                                                                          <  1:14466‑M2/149‑35 (MQ=255)                              tcctagttgCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCATCAGGTAATGCTGAGtcttctcccaatccgtggttttcgaaagtcgtttgca                                                                                                       >  2:292877‑M2/5‑112 (MQ=255)                                   gTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCACTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACaa                                                                                                  <  1:241422/149‑1 (MQ=255)                                      ccGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCCGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgcca                                                                                               >  2:498222‑M2/1‑104 (MQ=255)                                         ggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgatagccgtttgcacagtgccatcc                                                                                            <  1:288818‑M2/149‑49 (MQ=255)                                           caTTCTGCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATgg                                                                                          <  1:119752/148‑1 (MQ=255)                                            aTTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACATCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgat                                                                                         >  1:427262‑M2/1‑98 (MQ=255)                                              tcttcAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgattt                                                                                       <  1:438451‑M2/149‑54 (MQ=255)                                                    gcagAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatc                                                                                 <  1:486817‑M2/149‑60 (MQ=255)                                                    gcagAAAAAGCGGCACCATTGCATATCCGCTGGGCTGTTGGCGGAGTGGCCTAAGTCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcaccgggccatccgatttgatatc                                                                                 >  2:256479‑M2/1‑90 (MQ=255)                                                     cagAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcg                                                                                <  2:139180‑M2/149‑61 (MQ=255)                                                                      ttGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcg                                                               >  1:269856‑M2/1‑72 (MQ=255)                                                                        gCATTTCAGCCGGCCTGTTGGCGTAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaatccaaggttttcgagagccgtttgcacagtgccagccgatttgatatcgccaaacggattcttgcggc                                                             >  2:584141‑M2/1‑70 (MQ=255)                                                                                        gTTGGCGGAGTGGCGGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcg                                             >  1:139180‑M2/1‑54 (MQ=255)                                                                                            gCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagt                                         <  2:102453‑M2/149‑100 (MQ=255)                                                                                                   ggCTGAAGGCCACGGAACAGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaa                                  >  2:377219‑M2/1‑43 (MQ=255)                                                                                                    gCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaag                                 <  1:539941‑M2/149‑108 (MQ=255)                                                                                                      tGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgccgtaagcg                               <  1:139702‑M2/149‑110 (MQ=255)                                                                                                       gAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaatgttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa                              >  1:462231‑M2/1‑39 (MQ=255)                                                                                                       gAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcccagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaa                              >  1:462226‑M2/1‑39 (MQ=255)                                                                                                                ggAACCGGGACACCAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgctatagcaaaacggattcttgcggcttaacagcagcgcgcggaggtgggtaagtaacgggtcgtg                     <  2:333117‑M2/149‑120 (MQ=255)                                                                                                                             caacaaGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatt                                                                                        <  2:538984‑M2/69‑53 (MQ=255)                                                                                                                             cAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctcc        <  2:120917‑M2/149‑133 (MQ=255)                                                                                                                             cAACAGGTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatt                                                                                        >  1:538984‑M2/1‑17 (MQ=255)                                                                                                                                cAGGTAATGCAGAGccttctcccaacccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccagg     >  1:120917‑M2/1‑14 (MQ=255)                                                                                                                                   gTAATGCAGAGccttctcccaaaccaaggttttcgagagccgtttgcacagtgccatccgatttgatatcgccaaacggattcttgcggcttaacagcagcgcgcgaagtgcggtaagtaactggtcgtgccgccccttctccaggctg  >  1:102453‑M2/1‑11 (MQ=255)                                                                                                                                             |                                                                                                                                           TCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACG  >  NC_000913_3_pae_tpiA/1209462‑1209740

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.