New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1207790 =	21 (1.160)	6 (0.380)	6/232	NT	23.8%	coding (290/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	1209619 =	20 (1.260)					pseudogene (37/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment

AGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAA  >  NC_000913/1207655‑1207923                                                                                                                                        |                                                                                                                                      gttcagcgcattacgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTg                                                                                                                                >  2:277052‑M1/136‑143 (MQ=255)  ggCATCCGGCGCCAGCCCGGAGACGGCGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTgg                                                                                                                               <  1:49970/143‑1 (MQ=255)  ggCACCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTGCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTgg                                                                                                                               <  1:50010/143‑1 (MQ=255)   tcagcgcattacgttgtagatctgtgttctggtcatttgttgatacgcgtacatagccaataagcatgttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTggg                                                                                                                              >  2:129619‑M1/134‑143 (MQ=255)     aTCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCCCTGTGCAAACGGCTCTCGCAACCCTTCGTCTGGgag                                                                                                                            >  1:7468/1‑143 (MQ=17)     aTCCGGTGCCAGCCTAGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGACACTCGAAAACCTTAGGTTGGgag                                                                                                                            >  2:307627/1‑143 (MQ=17)      tCCGGTGCCTGCCTGGAGAGGGGGCGGCAAGACCAGTGACTTACCGTACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAATCCTTGGTTTGGgaga                                                                                                                           <  2:186406/143‑1 (MQ=17)       ccGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCCAGAATCCGTTTGGCGATGTCAAATCGGATGGCACTGTGCAGACGGCTCTCGACACCGTGGGGTTCGGAGaa                                                                                                                          >  1:154086/1‑143 (MQ=17)              cAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCCCTTCGCGCGCTGCTGCTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGAGGGCACTGTGCCAACAGCACGCGAAAGCACTGATATAAGAGAAGGAGCaa                                                                                                                   >  2:233952/1‑143 (MQ=17)               aGCCTGGAGAAGGGTCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATAGGCTCGCCCCGTGCACACGGCTCTCGAACACCTTGGTTTGGGCGGAGGAGCaaa                                                                                                                  >  2:263857/1‑143 (MQ=17)                     gagaAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCaa                                                                                                            <  1:331595/143‑1 (MQ=255)                                   tcatttgttgatacgcgtagatagtcaataagcatgttatatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTa                                                                                              >  2:38691‑M1/102‑143 (MQ=255)                                                  cGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCAccc                                                                               >  1:359019/1‑142 (MQ=255)                                                       ttCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCACCCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTAAATGAAGCAACGGCTACAGTAGGACGCAACGGATTc                                                                          >  2:88972/1‑143 (MQ=21)                                                                    gTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCgg                                                             >  1:93508/1‑143 (MQ=255)                                                                      gttaaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGtt                                                           <  1:142724‑M1/77‑1 (MQ=255)                                                                        taaatccccctggtaaaagcaggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCACTGCAGCACCGGCTCCATTAGGACGCGCCGGTTTCATAGCTATAACAGTTAt                                                         <  1:57363‑M1/79‑1 (MQ=255)                                                                           cGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGAt                                                      >  1:52754/1‑143 (MQ=255)                                                                             cAAGAACCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATtg                                                    <  1:171322/143‑1 (MQ=255)                                                                                      gTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGAAACGGTTTCATAGCTATATTGGTTATGATTGTTGGTATTg                                           >  1:163092/1‑143 (MQ=38)                                                                                       aaagcagtagtgttgccagttgcctcttagttcctcattttcataaacgTTGGTTTGGCAGAAGGAGCAAAACGCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATTATTGGTGGTATTGa                                          >  2:48644‑M1/50‑143 (MQ=255)                                                                                        aagcaggagtgatgcccgttgtgtgtgattgcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAg                                         >  1:47356‑M1/49‑143 (MQ=255)                                                                                            aggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTgg                                                                                                                               >  1:185690‑M1/45‑53 (MQ=255)                                                                                            aggaatgatgccatttgcttgttatttcttcattttcataaacgTTGGTTTgg                                                                                                                               <  2:185690‑M1/9‑1 (MQ=255)                                                                                             gATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGACAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACGGGTTCTGCTTGGTCGTTTTgttccatc                                    >  1:261519/1‑136 (MQ=38)                                                                                              gaatgatgccatttgcttgttagttcttcattttcataaacgTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCa                                   >  1:203801‑M1/43‑143 (MQ=255)                                                                                                 tCAAATCGGATGGCACTGTGCAAACGGCTCTCGGAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTCTGATTGGTGGTATTGAGCCCTCAGTa                                >  1:339842/1‑143 (MQ=255)                                                                                                   aaaTCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAAt                              >  1:362931/1‑143 (MQ=255)                                                                                                           cggCACGGTGCAAACGGCGCTCGAAAGCCTTGGTTGGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGt                      <  1:49284/142‑1 (MQ=255)                                                                                                               aCTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTgggg                  <  1:3954/143‑1 (MQ=255)                                                                                                                               tcGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCACCGGCTACATTAGGACGCACCAGCTTCATAGCTATACCACTTATGATTGCTGGCATTCAGCACTCCGTAATCAGCCAGTCCGCGTGACATGCCGCaaag  >  2:140812/1‑142 (MQ=255)                                                                                                                                        |                                                                                                                                      AGGCATCCGGTGCCAGCCTGGAGAAGGGGCGGCACGACCAGTTACTTACCGCACTTCGCGCGCTGCTGTTAAGCCGCAAGAATCCGTTTGGCGATATCAAATCGGATGGCACTGTGCAAACGGCTCTCGAAAACCTTGGTTTGGGAGAAGGAGCAAAACTCAATGCAGCAACGGCTACATTAGGACGCACCGGTTTCATAGCTATACCGGTTATGATTGGTGGTATTGAGCAATCAGTAATCATTCAGTGGGGGTGGAATGCCGCAAAA  >  NC_000913/1207655‑1207923

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.