New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	1207790 =	53 (0.660)	19 (0.270)	19/248	4.3	23.5%	coding (290/630 nt)	stfP	e14 prophage; uncharacterized protein
	?	NC_000913_3_pae_pgi	1209619 =	77 (1.090)					pseudogene (1/501 nt)	stfE	pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
Rejected: Coverage evenness skew score above cutoff.

TGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGC  >  NC_000913_3_pae_pgi/1207642‑1207931                                                                                                                                                     |                                                                                                                                              tGCAGCGTGGTGGAGGCATCCGGTTCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTTTCGAAAACCt                                                                                                                                               <  1:1370242/149‑1 (MQ=255)    aGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTgg                                                                                                                                            >  2:1167293/1‑149 (MQ=255)       gtggtgGAGGCATCCGGTGCCAACCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTAGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGAAGGCACTGTGCAAACGGCTCTCGCAAACCTTGGttt                                                                                                                                         >  2:1025265/1‑149 (MQ=255)         ggtggAGGCATCCGGTGCCAGCCTGGATAAGGTGCGTCATTACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGAAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTgg                                                                                                                                       <  1:187418/149‑1 (MQ=17)         ggtggAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGTCCACACCCGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTgg                                                                                                                                       <  1:1313295/149‑1 (MQ=17)         ggtggAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTgg                                                                                                                                       <  1:62113/149‑1 (MQ=255)           cggcggCATCCGGGGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCATTTCGCGGGCTGTTGTTAAGCGGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGga                                                                                                                                     <  2:862538/145‑1 (MQ=17)               ggCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAg                                                                                                                                 <  1:611463/149‑1 (MQ=255)                gCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGGTCTCGAGAACCTTGGTTTGGGAGAAgg                                                                                                                                >  1:1163934/1‑149 (MQ=255)                 cATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGa                                                                                                                               <  2:1137191/149‑1 (MQ=255)                   tCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCGCTCGAAAACCTTGGTATGGAAGAAggctc                                                                                                                             >  2:1337678/1‑146 (MQ=255)                     cGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCaa                                                                                                                           >  2:1042367/1‑149 (MQ=255)                       gTGCCAGCCTGGAGAAGGGGCGGCATGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCaaaa                                                                                                                         <  1:1381159/149‑1 (MQ=255)                       gTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCaaaa                                                                                                                         <  1:1042699/149‑1 (MQ=255)                            aGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCaa                                                                                                                    <  1:1124009/149‑1 (MQ=255)                               cTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgc                                                                                                                 >  1:1128827/1‑149 (MQ=255)                                tGGAGAAGGGGCGGCACGACCAGTTACGGACCGCACTTCGCGCGCTGGTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgca                                                                                                                <  2:633146/149‑1 (MQ=255)                                   agaAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgcagca                                                                                                             >  1:215469/1‑149 (MQ=255)                                               aCGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCACGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTa                                                                                                 >  1:599669/1‑149 (MQ=255)                                                     aGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGc                                                                                           >  2:662092/1‑149 (MQ=255)                                                       ttacttacCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCTATATCAAATCGGATGGCACGGTGCAAACGGCTCTCGAAAACCTTGGTGTGTGAGAAGGAGCAAAACTCAATGCAGCAACGTCTACATTAggacggac                                                                                         >  2:507691/1‑149 (MQ=21)                                                                 cACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATAGAAACAGACTGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATa                                                                               <  1:753130/149‑1 (MQ=25)                                                                  gcttggggcggTGCTGTTAATCAGACAGAATCGTTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTGGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAg                                                                              <  2:200775/142‑1 (MQ=25)                                                                  aCTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAg                                                                              >  1:24518/1‑149 (MQ=255)                                                                    ttCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGt                                                                                                                                           <  1:445949/86‑1 (MQ=255)                                                                    ttCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGt                                                                                                                                           >  2:445949/1‑86 (MQ=255)                                                                               ctgTTAAGCCCAAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTAt                                                                 <  2:685933/149‑1 (MQ=255)                                                                                  ttAAGCCGAAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAATTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGGTATGAt                                                              >  2:1224473/1‑149 (MQ=255)                                                                                    aaGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtg                                                            <  1:662092/149‑1 (MQ=255)                                                                                     aGCCGGAAGAACCGGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAACACCTTTGTTTGGGAGAAGGAGCAAATCTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtgg                                                           <  2:439412/149‑1 (MQ=255)                                                                                      gCCGCAAGAATCCGGTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtggt                                                          <  2:411243/149‑1 (MQ=255)                                                                                       ccGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtggtg                                                         <  2:215469/149‑1 (MQ=255)                                                                                       ccGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtgctg                                                         <  2:176504/149‑1 (MQ=255)                                                                                       ccGCAAGAATCCGGTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAAGGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtggtg                                                         <  2:493906/149‑1 (MQ=255)                                                                                             gAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTg                                                   <  2:1128827/149‑1 (MQ=255)                                                                                             gAATCCGTTTGGCGAGATCAAATGGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTg                                                   <  2:946832/149‑1 (MQ=255)                                                                                               aTCCGTTTGGCGATATCAAGTCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAg                                                 <  1:979111/149‑1 (MQ=255)                                                                                                   gTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTTAGCGAt                                             >  1:520588/1‑149 (MQ=255)                                                                                                    tttGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATc                                            <  1:1042367/149‑1 (MQ=255)                                                                                                       agggATGTCAAAGGGGGTGGCGATGTGCAAACGGCCTTAGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTATATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGt                                         <  2:1344200/146‑1 (MQ=255)                                                                                                           atatCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGACTGGTGGTATTGAGCAATCAGTAATc                                     >  1:1323850/1‑149 (MQ=255)                                                                                                                aaaTCGGATGGGACGGTGTAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCa                                <  2:927455/149‑1 (MQ=255)                                                                                                                      gATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTgggg                          >  1:578039/1‑149 (MQ=255)                                                                                                                           cACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGGGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGa                     >  1:289524/1‑149 (MQ=255)                                                                                                                            aCTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAATAATCATTCAGTGGGGCTGGaa                    >  2:541502/1‑149 (MQ=255)                                                                                                                              tgtcaaaaCGGCTCTAGAAAACCTTGGTTTGGGAAGAGGAGCAAAACACAATGTAGCAACGGTTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGCGCACTCAGTAATCATTCAGTGGGGGTGGAATg                  <  2:520588/144‑1 (MQ=255)                                                                                                                                tgCAAACTGCTCTCGAAAACCTTTGTGTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGGTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGcc                <  2:842141/149‑1 (MQ=255)                                                                                                                                tgCAAACGGCTCTCGAAAACCTTGGTTTTGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGcc                <  1:963205/149‑1 (MQ=255)                                                                                                                                   aaaCGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACAGGTTTCATAGCTATACCGCTTATGATTGGTGGGATTGAGCAATAAGTACTCCTTCAGTGGGGCGGGAATGCCGCa             >  2:151985/1‑149 (MQ=255)                                                                                                                                            tcGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCt    <  2:1136081/149‑1 (MQ=255)                                                                                                                                              gAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTTAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGc  >  1:130188/1‑149 (MQ=255)                                                                                                                                              gAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTga  >  1:26144/1‑148 (MQ=255)                                                                                                                                              gAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGCGTAGAATGCCGCAAAAGCATCTGc  >  2:222497/1‑149 (MQ=255)                                                                                                                                                aaaCGTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCg                                                                                       >  1:755528/1‑62 (MQ=255)                                                                                                                                                aaaCGTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCg                                                                                       <  2:755528/62‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                              TGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGC  >  NC_000913_3_pae_pgi/1207642‑1207931

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.