New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	15387 =	NA (NA)	6 (0.330)	6/252	NT	100%	noncoding (1/1345 nt)	IS186	repeat region
	?	CP009273	= 454251	0 (0.000)					intergenic (+95/‑93)	clpX/lon	ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La

GCGTTGTCGTCGAAACACCGGTAGGCCTGAACGAAAGGCAGAAACAGCTGCTGCAAGAGCTGCAAGAAAGCTTCGGTGGCCCAACCGGCGAGCACAACAGCCCGCGCTCAAAGAGCTTCTTTGATGGTGTGAAGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACCCGCCGCCGCGAAATTCGTGATGCTGCAACTCTGCTACGTCTGGGGCTGGCTTACGGCCCCGGGGGGATGTCATTACGTGAAGTCACTGCATGGGCTCAGCTCCATGACGTTG  >  CP009273/15138‑15652                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                          gggttgttGTCGAAAAACCGGTAGGCCTGAACGAAAGGCAGAAACAGCTGCTGCAAGAGCTGCAAGAAAGCGTCGGTGGCCCAACCGGCGAGCACAACAGCCCGCGCTCAAAGAGCTTCNTTGATGGTGTGACGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAggg                                                                                                                                                                                                                                                     <  1:344589/270‑1 (MQ=255)                                                                         tCGGTGGCCCAACCGGCGAGCACAACAGCCCGCGCTCAAAGAGCTTCTTTGATGGTGTGAAGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATAACTCCCCTAAGCGCTCACTTAAGGGTTGGGGGATAACGCCTGATATGATTTAACGTGCCGATGAATTAATCGCAAGAAAACTGGTCAGCAATTCTGGccc                                                                                                                                                                          >  1:22103/1‑275 (MQ=38)                                                                         tCGGTCGCCCAACCGGCGAGCACAACAGCCCGCGATCAAAGTGCTTCTTTGATGGTGTGAAGAAGTTTTGTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGc                                                                                                                                                                            <  1:158565/273‑1 (MQ=255)                                                                                               taacaGCCCGCGCTCAAAGAGCTTCTTTGATGGTGTGAAGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAggg                                                                                                                                                                                                                                                     <  1:223156/177‑1 (MQ=255)                                                                                                     cccGCGCTCAAAGAGCTTCTTTGATGGTGTGAAGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATGACTCCCATAAGCGCTAACTTAAGGGTTGTGGGATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCCCGATAACTGGTCAGCAATTCTGGCCCATATTTGTAAGCCCGAAAAACTGGATa                                                                                                                                               >  1:354114/1‑274 (MQ=255)                                                                                                                        tttGATGGGGGGAAGAAGTTTTTTGACCACCTGACCCGCTAACCCCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCg                                                                                                                             <  2:354108/273‑1 (MQ=255)                                                                                                                                                                                  cccGTGGGCAGGCCTGGGTAAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGa                                                                                                                                                                                                              >  1:132598/1‑135 (MQ=255)                                                                                                                                                                                      tGGGCAGGCCTGGGTAAAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTa                                                                                                                                                                                                          <  2:132593/135‑1 (MQ=255)                                                                                                                                                                                              ccTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCNGATGAATTACCTTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACCCGCCGCCGCGAAATTCGTGATGCTGCAACTCTGCTACGTCTGGGGCTGGCTTACGGCCCCg                                                     <  1:363750/275‑1 (MQ=255)                                                                                                                                                                                                  ggT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAGGCCCGAAGAACTGGATACTNTGGCACGTAATGCCGGGGCTCTAACCCGCCGCCGCGAAAATCGTGATGCTGGAACTCTCCTACGACTGGGGCTGGTGTAAGGCCCCggggg                                                 >  1:317987/1‑275 (MQ=17)                                                                                                                                                                                                               gTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTc                                                                                                                                                                                                                                                                          >  1:389396/1‑46 (MQ=255)                                                                                                                                                                                                                   gTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCAt                                                                                                                                                                                                                                                                      <  2:389390/46‑1 (MQ=255)                                                                                                                                                                                                                      gAAGATATGCGAGCACCTGTAAAGGGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACCCGCCGCCGCGAAATTCGTGa                                                                                              <  2:127090/211‑1 (MQ=255)                                                                                                                                                                                                                                            aGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACg                                                                                                                                                                                                                                        >  2:152188/1‑51 (MQ=255)                                                                                                                                                                                                                                                gCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTAt                                                                                                                                                                                                                                            >  2:67896/1‑43 (MQ=255)                                                                                                                                                                                                                                                gCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTg                                                                                                                                                                                                                                    <  1:152193/51‑1 (MQ=255)                                                                                                                                                                                                                                                gCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGt                                                                                                                                                                                                                      >  2:29311/1‑65 (MQ=255)                                                                                                                                                                                                                                                   gggATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACCCTCCGCCGCGAAATTCGTGATNCTGCAACTCTGCTACGTCTGGGGCTGGCTTACGGCCCCGGGGGGATGTCATTACGTGAAGTCACTGCATGGGCTCAGCCCCCTgtcactt  >  1:316300/1‑268 (MQ=12)                                                                                                                                                                                                                                                    ggATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACg                                                                                                                                                                                                                                        <  1:67899/43‑1 (MQ=255)                                                                                                                                                                                                                                                    ggATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCg                                                                                                                                                                                                                  <  1:29312/65‑1 (MQ=40)                                                                                                                                                                                                                                                        cACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACccgcc                                                                                                              >  2:292645/1‑161 (MQ=31)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                          GCGTTGTCGTCGAAACACCGGTAGGCCTGAACGAAAGGCAGAAACAGCTGCTGCAAGAGCTGCAAGAAAGCTTCGGTGGCCCAACCGGCGAGCACAACAGCCCGCGCTCAAAGAGCTTCTTTGATGGTGTGAAGAAGTTTTTTGACGACCTGACCCGCTAACCTCCCCAAAAGCCTGCCCGTGGGCAGGCCTGGGT‑AAAAATAGGGTGCGTTGAAGATATGCGAGCACCTGTAAAGTGGCGGGGATCACTCCCATAAGCGCTAACTTAAGGGTTGTGGTATTACGCCTGATATGATTTAACGTGCCGATGAATTACTCTCACGATAACTGGTCAGCAATTCTGGCCCATATTGGTAAGCCCGAAGAACTGGATACTTCGGCACGTAATGCCGGGGCTCTAACCCGCCGCCGCGAAATTCGTGATGCTGCAACTCTGCTACGTCTGGGGCTGGCTTACGGCCCCGGGGGGATGTCATTACGTGAAGTCACTGCATGGGCTCAGCTCCATGACGTTG  >  CP009273/15138‑15652

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 35 ≤ 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.