New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4049911 =	0 (0.000)	26 (0.930)	23/284	0.2	100%	noncoding (14/109 nt)	spf	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
	?	NC_000913	= 4499512	NA (NA)					intergenic (+11/+82)	insD1/yjgX	IS2 transposase TnpB/pseudogene fragment

AGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGTA  >  NC_000913/4499378‑4499646                                                                                                                                       |                                                                                                                                       agagGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGATAAGTGATAACAGATGTCAGGAAATATAGGGACAAAACCACATTGTGc                                                                                                                                >  1:12255/1‑143 (MQ=11)       gtgcGAGCATTGTAACGAAGTGCAGCCGCATAGTGCGCTGGGTTATCGCTCGCGACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGATATATAGGGGCAAATCCACCTTGTGCTGatat                                                                                                                          <  2:65547/140‑1 (MQ=14)                      ctaaTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCCCCTTGTGCTGATATGAATACGGATAtttt                                                                                                           <  1:485901/141‑1 (MQ=255)                       gcacggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTta                                                                                                          <  1:150655/139‑1 (MQ=255)                           ggCATCCGCATAGTGCGCTGGGTTATCGCTCGGCACGGGGATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACa                                                                                                      <  2:95241/143‑1 (MQ=255)                              aTCGGCATAGCGCGTGGGGTGATCGCTCGGCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGaa                                                                                                   <  2:485953/143‑1 (MQ=18)                                      aGTGCGGTGGGTTATCGCTCGCCATGGGAATTGCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACATTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTc                                                                                           <  2:392542/143‑1 (MQ=18)                                             tGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACaa                                                                                    <  2:405598/143‑1 (MQ=255)                                                 ttttcgctcgcCAGTGGAATATCTGCGGCAGCGGTCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAAGATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGa                                                                                <  2:44723/140‑1 (MQ=25)                                                         cgcCTCGGGAGTAGCTGCGGCAGCGGGCGTGTAATGGGTTCAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATATTATAAAGAATACTTTTCAGTACAAGCGACTGTATTa                                                                        <  2:173550/143‑1 (MQ=25)                                                          gcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTAc                                                                       >  1:391443/1‑143 (MQ=255)                                                             aCGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTTGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGt                                                                    >  1:253006/1‑143 (MQ=255)                                                              cGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCCAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTc                                                                   >  2:193165/1‑143 (MQ=255)                                                                          cGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGa                                                       <  1:226451/143‑1 (MQ=255)                                                                                    cTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGa                                             <  1:483022/143‑1 (MQ=255)                                                                                           tGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTATGCCAGATATGATTACCTGTCATCAGgat                                      >  2:375122/1‑142 (MQ=255)                                                                                                tcaGTGGTCACAGATGTCTGGAAATAGAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACGAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATa                                 <  2:79443/141‑1 (MQ=255)                                                                                                       tAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATATGTGGCt                          >  1:52104/1‑143 (MQ=255)                                                                                                          cAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAg                       >  1:191980/1‑143 (MQ=255)                                                                                                           aGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCAGATATGATTACCTGTGATTCGGAAGCATAAGTGCCTGAgg                      >  2:483760/1‑143 (MQ=255)                                                                                                                  tGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCaca               >  2:465477/1‑141 (MQ=255)                                                                                                                  tGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCaaa               >  1:417876/1‑143 (MQ=255)                                                                                                                  tGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGAACAGGAAGAATAAGTGGCTGAGGTTTCaaa               >  1:130293/1‑143 (MQ=255)                                                                                                                              ggCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGACGGt   >  1:33779/1‑143 (MQ=255)                                                                                                                               gCAAATCCACCTTGTGCTGATATGAATACGGAGATTTTATACAGAATACTTTTCAGTACAAGCGACTAAATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGACCGCCGGta  >  2:97468/1‑143 (MQ=255)                                                                                                                                       |                                                                                                                                       AGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAATAAGTGGCTGAGGTTTCAAACTGTCTGCCGGTA  >  NC_000913/4499378‑4499646

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