New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1207790 =	21 (0.870)	14 (0.630)	11/354	NT	50.7%	coding (290/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	1209619 =	8 (0.360)					pseudogene (37/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment

GCAGAAGGATAAGTTCGGCGCGGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCCCGGTTGCGTTTAATAATGCCTGTGTTGCCGTTGTTGCAAATTATGACAATGTCAGCGCACCTATCAATGCAGTGGCAAC  >  NC_000913/1207527‑1208042                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                             gcAGAAGGATAAGTTCGGCGCGGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCCGTTACTTACCGCACTTCGC‑C‑CTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCAACGTGCAAACGGCCCC‑CGAAAACACAGGTTTGCgaga                                                                                                                                                                                                                                                  >  2:221166/1‑274 (MQ=18) gcAGAAGGATAAGTTCGGCGCGGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCCAGAATCCGTTTGGCACTATTAAAGCGGAAGGCACTGGTCAAAAGGCACTCCGAAAACCCTGGGTTggg                                                                                                                                                                                                                                                     >  2:176992/1‑274 (MQ=17)     cgatccagcttccagacaaccagagtgtcacctgccgataatgtcctgagcagttttttcagtcccggcctttcggactttgtgccgcttatcttgtcttcaaaaatcagctcgcatcctgcacagttcagcgcattacgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtcaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGgag                                                                                                                                                                                                                                                   <  1:6759‑M1/12‑1 (MQ=255)     aagtagaaGTTCGGAGGGGGGAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGAGCTGGATGATGACTACTTTGACATGTTGCAGTAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCGGGAGAAGGGGCGGCACTACGAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAg                                                                                                                                                                                                                                                <  1:341557/268‑1 (MQ=17)           aaGTTCGGCGCGGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCCTGGCTTGGGCGAAGGAGCaa                                                                                                                                                                                                                                          >  2:99163/1‑274 (MQ=255)                   cgcgGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAAt                                                                                                                                                                                                                                  >  1:25965/1‑274 (MQ=255)                             aaCGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGGCTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGGGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTGGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACg                                                                                                                                                                                                                         <  1:176992/273‑1 (MQ=255)                             aaCGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACg                                                                                                                                                                                                                         <  1:99163/273‑1 (MQ=255)                                                      gcagttttttcagtcccggcctttcggactttgtgccgcttatcttgtcttcaaaaatcagctcgcatcctgcacagttcagcgcattacgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgtt                                                                                                                                                                                                                                                             <  1:308680‑M1/2‑1 (MQ=255)                                                       gtccGTCACTCCTGCCACCGATCTGGATGAGTCTTACTTTGACTTGTTGCTGGGGTATCTTGGCAGCGTGGTGGAGGCATCAGGGGCCAGCCGGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCGGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATa                                                                                                                                                                                              <  1:90659/272‑1 (MQ=18)                                                         gttttttcagtcccggcctttcggactttgtgccgcttatcttgtcttcaaaaatcagctcgcatcctgcacagttcagcgcattacgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGt                                                                                                                                                                                                                                                          >  2:308680‑M1/209‑213 (MQ=255)                                                             cACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgcag                                                                                                                                                                                                                              <  2:55013/236‑1 (MQ=255)                                                             cACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgcag                                                                                                                                                                                                                              >  1:55013/1‑236 (MQ=255)                                                             cACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGGGCAAACGGCCCT‑CGAAAACCCTGGTTTGGGGGGAGGAGCAAAACTAAATGAAGCAACGGCAACAATAGGAAGCACCGGGTTCATAGCcata                                                                                                                                                                                        >  1:93337/1‑274 (MQ=18)                                                                gCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATgcagc                                                                                                                                                                                                                             <  1:13507/234‑1 (MQ=255)                                                                                            cttatcttgtcttcaaaaatcagctcgcatcctgcccagttcagcgcattacgttgtagatctgtgttctggtcatttgtttattcgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttttttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAACACTCAATGCAGCaa                                                                                                                                                                                                                           <  1:339907‑M1/36‑1 (MQ=255)                                                                                               gagtttttGCAGGAGGAATTGTGCGGCGGGGTGGGGGCATCCGGTGCAAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTT‑‑CTCGCTGCTGTTAAGCCGAAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATc                                                                                                                                                    <  1:221166/268‑1 (MQ=25)                                                                                                       gacgggggaACTTTCCGGGGTGGTGGAGGCTGCCGGGGCCAGCCGGGGGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAg                                                                                                                                              <  2:25965/268‑1 (MQ=37)                                                                                                                                              acgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATgcagca                                                                                                                                                                                                                            <  1:115156‑M1/35‑1 (MQ=255)                                                                                                                                              acgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCaa                                                                                                                                                                                                                           <  2:234371‑M1/36‑1 (MQ=255)                                                                                                                                              acgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAg                                                                                                                                                                                             <  2:102881‑M1/66‑1 (MQ=255)                                                                                                                                                 ttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACgg                                                                                                                                                                                                                        >  1:234371‑M1/121‑159 (MQ=255)                                                                                                                                                 ttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACg                                                                                                                                                                                                                         >  2:115156‑M1/121‑158 (MQ=255)                                                                                                                                                 ttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCta                                                                                                                                                                                          >  1:102881‑M1/121‑189 (MQ=255)                                                                                                                                                  cTGGGGAAGGGGCGGCACGACCACTTCCTTACCGCACTGCGCGGGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATAGCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATg                                                                                                   <  2:93337/274‑1 (MQ=255)                                                                                                                                                  cTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGAAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGa                                                                                                     <  1:325198/272‑1 (MQ=255)                                                                                                                                                                       cAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCt                                                                                                                                                                                           >  2:14962/1‑165 (MQ=255)                                                                                                                                                                          ttacttacCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCtata                                                                                                                                                                                        <  1:14962/165‑1 (MQ=255)                                                                                                                                                                                                 aagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGAc                                                                                                                                                                                                            <  2:227937‑M1/51‑1 (MQ=255)                                                                                                                                                                                                    catgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCa                                                                                                                                                                                                         >  1:227937‑M1/70‑123 (MQ=255)                                                                                                                                                                                                        ttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCCCGGTTGCGTTTAATAATGCCTGTGTTGCCgttgtt                                              >  1:287638‑M1/66‑274 (MQ=255)                                                                                                                                                                                                                                          aTGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGtt                                                                                                                                                                                                   >  1:74457/1‑90 (MQ=255)                                                                                                                                                                                                                                           ttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGa                                                                                                 <  1:279095‑M1/158‑1 (MQ=255)                                                                                                                                                                                                                                           ttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCCCGGTTGCGTTtaata                                                                  <  1:74411‑M1/189‑1 (MQ=255)                                                                                                                                                                                                                                             gCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCa                                                                                                                                                                                                <  2:74457/90‑1 (MQ=255)                                                                                                                                                                                                                                              cttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAAt                                                                                              >  2:279095‑M1/28‑188 (MQ=255)                                                                                                                                                                                                                                              cttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCCCGGTTGCGTTTAATAATg                                                               >  2:74411‑M1/28‑219 (MQ=255)                                                                                                                                                                                                                                                    gCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCACGGTTGCGTTTAATAATGCCCGTGTTGCCGTTGTTGCTAATTATGAAAATGTCAGCGCACCTATCAATGCCGTGTCaca  >  2:231698/1‑271 (MQ=255)                                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                                             GCAGAAGGATAAGTTCGGCGCGGGTAAGAACGGTTTTACCCGTGGTAACCCCCAGACCGGCACGCCTGCCACCGATCTGGATGATGACTACTTTGACATGTTGCAGGAGGAACTTTGCAGCGTGGTGGAGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCT‑CGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAAGCATCTGCCTCTGGGGGGGATGGAAATACAGTTGTATTCCCGGTTGCGTTTAATAATGCCTGTGTTGCCGTTGTTGCAAATTATGACAATGTCAGCGCACCTATCAATGCAGTGGCAAC  >  NC_000913/1207527‑1208042

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.